Abstract


El transcriptoma es el conjunto de moléculas de ARN -codificantes y no codificantes- presentes en una célula o grupo de células en un momento determinado. Partiendo de muestras de tejido tiroideo sin infiltrar (NIT), con pequeñas infiltraciones focales (SFI) y con infiltraciones extensivas (ELI), pretendemos comparar sus transcriptomas e identificar aquellos genes que están diferencialmente expresados en cada una de las posibles comparaciones (NIT-SFI, NIT-ELI, SFI-ELI). Con este objetivo en mente, se analizarán datos provenientes de RNAseq, una técnica de secuenciación que, en contraste con los microarrays, permite detectar hasta un 25% más de DEG entre condiciones. El procesado de los datos y la búsqueda de DEG se realizará mediante el software estadístico R (versión 3.6.2) y de paquetes del proyecto BioConductor (versión 3.10). Los datos y el código relacionados con el análisis pueden ser consultados en el siguiente repositorio GitHub.


Objetivos


El objetivo del estudio es aportar nueva información y mejorar el conocimiento del efecto que tiene la presencia -en diferente grado- de infiltraciones en el tejido tiroideo. En esta dirección, se pretende identificar -a partir de los counts obtenidos mediante RNAseq- que genes y que vías metabólicas están diferencialmente expresados en cada una de las posibles comparaciones entre las tres condiciones experimentales (NIT, SFI, ELI).


Materiales & Métodos


Materiales


Software


Aunque se ha propuesto el uso del software Galaxy (Afgan et al. 2016) como alternativa para este análisis, nosotros nos hemos decantado por la combinación de R (versión 3.6.2) y BioConductor (versión 3.10). Además, para facilitar el procesado y hacerlo más cómodo visualmente, hemos utilizado la interfaz R-Studio (RStudio Team 2015). En la Tabla 1 se muestra un listado con los paquetes implementados durante el análisis.


Package Repository Description Version
knitr CRAN Provides a general-purpose tool for dynamic report generation in R using Literate Programming techniques. 1.28
kableExtra CRAN Build complex HTML or ‘LaTeX’ tables using ‘kable()’ from ‘knitr’ and the piping syntax from ‘magrittr’. 1.1.0
readxl CRAN Import excel files into R. Supports ‘.xls’ via the embedded ‘libxls’ C library and ‘.xlsx’ via the embedded ‘RapidXML’ C++ library . 1.3.1
ggplot2 CRAN A system for ‘declaratively’ creating graphics, based on “The Grammar of Graphics”. 3.3.0
citr CRAN Functions and an ‘RStudio’ add-in that search ‘Bib(La)TeX’-files or ‘Zotero’ libraries to insert formatted Markdown citations into the current document. 0.3.2
ggrepel CRAN Provides text and label geoms for ‘ggplot2’ that help to avoid overlapping text labels. Labels repel away from each other and away from the data points. 0.8.2
gplots CRAN Various R programming tools for plotting data. 3.0.3
viridis CRAN Implementation of the ‘viridis’ - the default -, ‘magma’, ‘plasma’, ‘inferno’, and ‘cividis’ color maps for ‘R’. 0.5.1
cowplot CRAN Provides various features that help with creating publication-quality figures with ‘ggplot2’. 1.0.0
RColorBrewer CRAN Creates nice looking color palettes especially for thematic maps. 1.1.2
magritrr CRAN The magrittr is a package with two aims: to decrease development time and to improve readability and maintainability of code. 1.5
factoextra CRAN Provides some easy-to-use functions to extract and visualize the output of multivariate data analyses. 1.07
cluster CRAN Methods for Cluster analysis. 3.14
Biobase BioConductor Functions that are needed by many other packages or which replace R functions. 2.46.0
EnhancedVolcano BioConductor Here, we present a highly-configurable function that produces publication-ready volcano plots. 1.4.0
ReactomePA BioConductor This package provides functions for pathway analysis based on REACTOME pathway database. 1.30.0
org.Hs.eg.db BioConductor Genome wide annotation for Human, primarily based on mapping using Entrez Gene identifiers. 3.1
DESeq2 BioConductor Estimate variance-mean dependence in count data from high-throughput sequencing assays and test for differential expression using the negative binomial distribution. 1.26
AnnotationDbi BioConductor Implements a user-friendly interface for querying SQLite-based annotation data packages. 1.48
clusterProfiler BioConductor This package implements methods to analyze and visualize functional profiles (GO and KEGG) of gene and gene clusters. 3.14
enrichplot BioConductor The ‘enrichplot’ package implements several visualization methods for interpreting functional enrichment results obtained from ORA or GSEA analysis. 1.61


Tabla 1: lista de paquetes utilizados durante el análisis.


Datos


Los datos utilizados para el análisis provienen del portal GTEx (Carithers et al. 2015), un servidor web que subministra datos asociados a estudios relacionados con la expresión de hasta 54 tejidos diferentes. En contraste con lo que vimos en la PEC 1, no tenemos que descargar los datos desde ningún portal o servidor. De hecho, se nos han subministrado un par de archivos (counts.csv, targets.csv) que incluyen -respectivamente- los counts crudos de cada uno de los genes estudiados e información acerca de cada una de las muestras (metadata).


Vamos a centrarnos un poco más en el contenido. Como ya se ha comentado anteriormente, los datos corresponden a un estudio que pretendía identificar que genes están diferencialmente expresados en la tiroides en función de la presencia y el grado de infilitraciones en este tejido. En consecuencia, nos encontramos frente a un diseño factorial de un factor (Grado de infiltración) con 3 niveles (NIT, SFI, ELI). Como veremos posteriormente, antes del preprocesado dispondremos de una matriz cruda con un total de 292 muestras (236 NIT, 42 SFI y 14 ELI) y 5.620210^{4} genes. Sin embargo, una vez seleccionadas -aleatoriamente- las muestras para el análisis, cada nivel conformará un único grupo experimental compuesto de 10 réplicas biológicas y, por lo tanto, el tamaño muestral del experimento será de 30 muestras.


Métodos


El análisis de datos provenientes de RNAseq se puede realizar siguiendo protocolos muy variables. En esta sección del informe se intenta resumir un workflow que gira entorno al paquete DESeq2 (Love, Huber, and Anders 2014) y que está bastante extendido entre la comunidad científica.


Preparando entorno de trabajo


Para facilitar el análisis, intentaremos almacenar todos los datos de origen, resultados y ficheros intermedios utilizando una estructura ramificada y jerarquizada de directorios comprendida en el interior de nuestro directorio de trabajo (C:/Users/USER/Documents/Màster Bioestadística i Bioinfo/Análisis de datos Ómicos/PECS/ADO_PEC2_Marc_Garcia). Principalmente, este subconjunto estará formado por los cuatro directorios siguientes:


  • data: contendrá -entre otros- las matrices con los counts (original, subset y subset normalizado) y los ficheros con la información de las muestras (original y subset).

  • results: contendrá los resultados generados durante el análisis.

  • figures: aquí guardaremos las figuras generadas durante el análisis.

  • other: incluirá otro tipo de contenido como la tabla con la información sobre los paquetes utilizados.


Análisis exploratorio


El primer paso del pipeline de análisis consiste en un breve análisis exploratorio para identificar que estructura tienen los datos y cual es su contenido. En esta dirección, hemos utilizado una batería de funciones clásicas de R. Entre estas destacan las funciones View(), str(), head(), colnames() o dim(). Todas estas funciones pertenecen a los paquetes base y utils (R Core Team 2019).


Preprocesado de los datos


Selección de muestras


Para simplificar el análisis a la vez que garantizamos que los resultados obtenidos sean significativos, queremos que la representación de cada grupo se reduzca y sea idéntica. Además, para que los resultados de cada alumno sean ligeramente diferentes, queremos que la selección de estas muestras se haga de forma aleatoria. Consecuentemente, el objetivo de este apartado consiste en seleccionar -del total de muestras y de forma aleatoria- un subset de 30 compuesto por 10 muestras de cada uno de los grupos. Con este objetivo, utilizaremos la sintaxis de los corchetes y las funciones as.character(), set.seed() y sample() del paquete base (R Core Team 2019).


Cambio de nombre muestras


Adicionalmente, esta sección incluye el cambio de nombre de las muestras y el guardado del contenido en un nuevo archivo .csv. Con este objetivo en mente, utilizaremos la sintaxis de corchetes combinada con las funciones colnames(), rownames(), paste0() y write.csv() del paquete base (R Core Team 2019).


Construcción DESeq dataset


Antes de proseguir con el análisis, si queremos utilizar el paquete DESeq2 (Love, Huber, and Anders 2014) para el análisis, debemos generar un objeto de tipo DESeqDataSet. Como veremos más adelante, estos objetos presentan similitudes con la estructura de los ExpressionSet que vimos en la PEC 1. Con este objetivo en mente utilizaremos la función DESeqDataSetFromMatrix(). Como argumentos especificaremos la matriz de counts cruda (countData), los metadatos (colData) y el diseño factorial (design).


Eliminación de genes


Aunque este paso no es estrictamente necesario, con el objetivo de dinamizar el análisis, una de las primeras etapas consiste en eliminar -de los datos crudos- aquellos genes que no están expresados. Dicho de otro modo, pretendemos descartar aquellos genes que tienen -para todas las muestras- un número de counts igual a 0. Alternativamente, podemos decir que nos queremos quedar únicamente con aquellas filas que tengan como mínimo un count (rowSums >= 1). En esta dirección utilizaremos la sintaxis de los corchetes combinada con las funciones rowSums() del paquete base (R Core Team 2019) y counts() del paquete BiocGenerics (Huber et al. 2015).


Estabilización de la varianza


Algunas de la pruebas gráficas -que utilizaremos a continuación para el control de calidad- funcionan mejor con datos homocedáticos. Es decir, con muestras que -independientemente de su media de counts- tienen varianzas o desviaciones estándar parecidas. Ya que la media del número de counts y su varianza siguen -generalmente- una relación positiva, antes de proseguir con el control de calidad, debemos realizar lo que se conoce como estabilización de la varianza. El objetivo de este proceso es -precisamente- transformar los datos para que las muestras tengan varianzas similares. Es importante mencionar que, a parte de permitir el control de calidad, este proceso normaliza los datos. Principalmente, existen dos transformaciones ámpliamente utilizadas: la transformación vst y la transformación rlog. La primera se utiliza para datasets que tienen más de 30 muestras, mientras que la segunda se aplica para aquellos con n < 30. Además, la primera es más rápida y menos sensible a outliers. En consecuencia, nosotros utilizaremos esta transformación. Para implementarla usaremos la función vst() del paquete DESeq2 (Love, Huber, and Anders 2014).


Control de calidad


Una vez eliminados los genes que no están expresados en ninguna de las muestras y transformados/normalizados los datos, es necesario realizar un control para determinar si estos tienen la calidad suficiente para ser posteriormente analizados y si hay alguna muestra problemática. En esta dirección, existe una gran variedad de pruebas que podemos realizar, siendo la gran mayoría pruebas gráficas. Como veremos a continuación, entre las más típicas se encuentran los boxplots, los PCAplots o los dendrogramas.


Boxplots


Una de las alternativas más clásicas y ámpliamente utilizadas para valorar la calidad de las muestras consiste en construir un boxplot que muestre la distribución del número de pseudocounts para cada una de las muestras. De este modo podemos comparar las distribuciones entre muestras, identificando cuales de ellas presentan distribuciones que se alejan de lo esperado. En este informe, para construir los boxplots, utilizaremos la sintaxis del paquete ggplot2 (Wickham 2016).


PCA plots


Otra opción muy interesante consiste en construir un PCA plot. Este tipo de gráficos se basan en aquellas componentes de los datos que son responsables de la mayor parte de la variabilidad observada entre muestras (PCs o componentes principales). Son una muy buena opción para determinar si las muestras de un mismo grupo se agrupan conjuntamente e independientemente del resto de grupos. También permiten detectar que muestras se alejan demasiado de su grupo (outliers) y, consecuentemente, puede ser que deban ser eliminadas. En contraste con lo comentado para el boxplot, para el PCA plot crearemos nuestra propia función (plotPCA3()). Esta función ha sido rescatada de la PEC 1 y ligeramente modificada para que se adapte a nuestras necesidades. Su código se muestra en el annexo.


Dendrogramas


La tercera y última prueba gráfica que utilizaremos para el control de calidad se basa en el clustering jerárquico y la posterior construcción de un dendrograma. Este tipo de gráficos son especialmente potentes para identificar si existen diferencias entre las muestras de los grupos experimentales y si existe alguna muestra que podamos catalogar como outlier. En realidad, este gráfico aporta información que es complementaria a la del PCA plot. Para la construcción del dendrograma utilizaremos las funciones dist() del paquete stats (R Core Team 2019) y las funciones hcut() y fviz_dend() del paquete factoextra (Kassambara and Mundt 2020).


Selección de genes (DEG)


Con la intención de identificar que genes estan diferencialmente expresados entre cada una de las dietas y el control, podemos utilizar diferentes enfoques. Aunque existen algunas alternativas que pasan por la utilización de los paquetes limma (Ritchie et al. 2015) o edgeR (Robinson, McCarthy, and Smyth 2009), nosotros hemos preferido utilizar la librería DESeq2 (Love, Huber, and Anders 2014). A continuación se describen brevemente todos los psos necesarios para generar el modelo lineal e identificar y visualizar aquellos genes que presentan una expresión diferencial entre comparaciones.


Análisis de Expresión diferencial


Realizar un análisis de expresión diferencial con el paquete DESeq2 (Love, Huber, and Anders 2014) es tremendamente fácil. Simplemente debemos aplicar la función DESeq() sobre un objeto de tipo DESeqDataSet, DESeqDataSetFromMatrix o DESeqDataSetFromHTSeqCount. Consecuentemente, esta función realizará un análisis por defecto que incluirá -secuencialmente- la estimación de los size factors, la estimación de la dispersión y la adaptación de un modelo binomial negativo.


Consultando resultados contrastes


Llegados a este punto, una vez hecho el análisis con DESeq(), podemos utilizar la función results() del paquete DESeq2 (Love, Huber, and Anders 2014) para consultar los resultados de cada uno de los contrastes. En esta dirección, es importante utilizar el argumento contrast y especificar -como un vector string de tres entradas- el factor y los dos niveles que queremos utilizar durante el contraste. Como veremos más adelante, el output resultante de results() contiene información similar y tiene en un formato muy parecido a las topTables que vimos en la PEC1.


Otra opción muy interesante que ofrece el output de la función DESeq() es la capacidad de aplicarle la función summary() del paquete base (R Core Team 2019). Esta opción permite -fijado un p-valor ajustado mediante el argumento alpha- obtener una tabla que contiene información, entre otros, sobre el número y porcentaje de genes que están upregulated o downregulated. Es importante tener en mente


Anotación de genes


Ahora ya tenemos construidas las topTables. Sin embargo, la única identificación que tienen las entradas de estas tablas es un identificador de ENSEMBL (ENSEMBL ID). Con el objetivo de asociar cada uno de estos identificadores con el nombre del gen al que pertenecen, utilizaremos la función mapIds() del paquete AnnotationDbi (Pagès et al. 2019) y el paquete org.Hs.eg.db (Carlson 2019). Adicionalemnte, también incorporaremos el identificador de Entrez Gene. Es importante remarcar que es probable que algunos de los geneids de las topTables no sean encontrados en la base de datos y por lo tanto se les asigne un valor NA. Consecuentemente, estas entradas deberán ser eliminadas mediante -por ejemolo- el uso de la función na.omit() del paquete stats (R Core Team 2019).


Exportando resultados


En este punto, si así nos conviene, podemos guardar el contenido de estas topTables en un archivo .csv mediante el uso de la función write.csv() del paquete utils (R Core Team 2019). El contenido de las tres topTables generadas lo guardaremos en el directorio results/topTables presente en nuestro working directory.


Filtrando DEG


A partir de las topTables generadas mediante la función results() podemos filtrar aquellos genes que consideremos como diferencialmente expresados (DEG). Igual que para la PEC 1, consideraremos que estos son aquellos que tienen un p-valor ajustado menor que 0.1 y un log2FC superior o inferior a 2. Para el filtrado podemos utilizar la función which() del paquete BiocGenerics (Huber et al. 2015) y la sintaxis de corchetes.


Volcano plots


La visualización de las tablas de genes diferencialmente expresados (DEG) se puede realizar fácilmente mediante volcano plots. Estos gráficos relacionan el cambio de expresión entre condiciones (log2 FoldChange) con la evidencia estadística (-log10(P-value)), siendo aquellos genes con valores más extremos en el eje x y con valores superiores en el eje y los que tienen una evidencia más fuerte de estar diferencialmente expresados. Una de las funciones más utilizadas para su construcción es volcanoplot() del paquete limma (Ritchie et al. 2015). Aún siendo una buena solución, nosotros hemos preferido emplear la función EnhancedVolcano() del paquete con el mismo nombre (Blighe, Rana, and Lewis 2019). A diferencia de volcanoplot(), EnhancedVolcano() permite dibujar el FDR y los logFC cutoffs, diferenciando las 4 categorías de genes que nos podemos encontrar mediante una paleta de colores. De este modo, es mucho más fácil identificar que genes presentan evidencia de estar diferencialmente expresados y establecer comparaciones entre los resultados de cada una de las comparaciones.


Análisis de significación


Resulta mucho más interesante y fácilmente interpretable estudiar -en vez de los genes uno por uno- que vías metabólicas están diferencialmente expresadas en cada una de las tres comparaciones. Para obtener esta información debemos realizar lo que se conoce como análisis de significación o gene enrichment analysis.


Obtención de listas de vías metabólicas diferencialmente expresados


Aunque no es la única alternativa, el paquete enrichplot (Yu 2019) dispone de funciones que nos permiten generar, para cada comparación, tablas que muestran las vías que presentan evidencias significativas de estar diferencialmente expresadas. Estas tablas, a las que nos vamos a referir como GOtables o pathwaytables contienen -entre otros- el identificador de Gene Ontology, una corta descripción (Description), la proporción de genes differencialmente expresados (GeneRatio), el p-valor (pvalue), el p-valor ajustado (p.adjust) y el q-valor (qvalue) para cada vía. Si ordenamos las vías por p-valor o p-valor ajustado (orden ascendiente), podremos visualizar aquellas con una mayor evidencia de estar diferencialmente expresadas.


Barplots


Uno de las modos más clásicos para representar el contenido de las GOtables o pathwaytables consiste en utilizar barplots. Utilizando la función barplot() del paquete graphics [] directamente sobre el objeto enrichGO, podemos generar un gràfico que muestre el número especificado de vías que tienen una mayor evidencia de estar diferencialmente expresadas. A parte de mostrarse el número de genes que forman cada una de estas vías (largo de la barra) también podemos visualizar -mediante una escala de color- el pvalor que indica la evidencia de que esa vía esté realmente diferencialmente expresada.


Cnetplots


Otra opción muy interesante para representar el contenido de las pathway tables consiste en construir cnetplots mediante la función cnetplot() del paquete enrichplot (Yu 2019). Estos gráficos tienen una estructura en forma de red que permite, además de visualizar que vías metabólicas presentan una mayor evidencia de estar diferencialmente expresadas, identificar las conexiones entre genes que pertenecen a más de una vía. Adicionalmente, si así se desea, también permite classificar, mediante una escala de color, aquellos genes que están sobrexpresados o infraexpresados.


Resultados


Exploración & Preprocesado


En la sección de métodos se ha explicado como eran los datos originales (counts.csv, targets.csv) y como se ha realizado el subset para obtener únicamente información de 30 muestras aleatorias. A continuación, se muestran dos tablas: una que contiene la matriz cruda con los counts de 100/5.620210^{4} genes para las 30 muestras seleccionadas (Tabla 2) y una con los metadatos de estas muestras (Tabla 3).


NIT_1 NIT_2 NIT_3 NIT_4 NIT_5 NIT_6 NIT_7 NIT_8 NIT_9 NIT_10 SFI_1 SFI_2 SFI_3 SFI_4 SFI_5 SFI_6 SFI_7 SFI_8 SFI_9 SFI_10 ELI_1 ELI_2 ELI_3 ELI_4 ELI_5 ELI_6 ELI_7 ELI_8 ELI_9 ELI_10
ENSG00000223972.4 0 7 2 2 8 0 4 1 3 3 3 2 6 2 3 2 9 6 9 1 0 0 1 0 4 2 5 3 1 3
ENSG00000227232.4 555 401 890 468 636 1487 840 925 517 600 460 430 640 457 1704 491 302 820 568 713 834 825 1472 1002 1325 423 489 1301 775 979
ENSG00000243485.2 1 4 1 1 5 1 0 0 2 1 0 0 4 1 1 2 4 0 1 2 1 1 1 1 1 0 1 1 2 3
ENSG00000237613.2 2 2 0 0 2 0 0 0 1 0 1 0 3 2 1 0 2 1 1 0 1 0 0 0 0 0 3 0 0 2
ENSG00000268020.2 1 0 1 0 2 0 0 0 1 4 2 0 1 0 0 0 2 0 1 0 0 0 0 0 2 2 2 0 0 5
ENSG00000240361.1 1 0 0 1 3 2 2 0 3 0 0 0 3 2 0 0 0 4 0 0 0 1 1 1 1 1 1 1 0 8
ENSG00000186092.4 1 0 2 1 4 2 2 1 2 0 1 0 1 3 0 1 2 5 1 1 0 1 2 0 2 0 3 0 1 3
ENSG00000238009.2 5 6 5 8 4 26 7 17 8 9 7 9 5 9 5 7 10 12 5 18 6 10 38 15 4 18 7 5 10 4
ENSG00000233750.3 11 16 16 16 123 46 26 19 14 25 12 9 16 14 22 4 74 18 14 2 6 21 24 19 8 6 100 7 2 81
ENSG00000237683.5 326 744 1126 528 1400 2032 522 813 154 1184 279 679 415 565 2536 552 674 973 738 511 445 853 2020 602 853 325 523 1132 580 527
ENSG00000268903.1 1 1 6 1 2 7 2 2 1 3 2 1 0 5 9 2 4 0 1 4 2 6 13 2 7 1 2 4 1 1
ENSG00000239906.1 0 10 10 4 13 19 8 2 0 35 7 8 4 10 84 5 8 20 10 8 2 16 25 32 17 4 3 2 4 5
ENSG00000241860.2 31 58 52 71 138 140 42 40 65 80 41 95 66 47 120 102 116 101 67 70 40 94 196 96 94 41 183 46 69 115
ENSG00000222623.1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0
ENSG00000241599.1 0 2 0 0 1 0 1 0 2 1 1 0 1 0 4 1 1 4 1 1 0 0 0 0 0 1 1 0 1 3
ENSG00000228463.4 66 40 29 31 113 258 42 58 8 64 16 26 18 64 53 95 16 66 52 7 66 98 52 39 44 42 21 92 5 42
ENSG00000237094.7 36 24 63 21 50 101 30 41 19 69 37 10 26 27 99 39 22 43 30 63 38 58 70 43 64 14 95 16 11 46
ENSG00000250575.1 1 4 2 1 1 6 0 4 4 1 1 4 1 3 3 2 3 6 7 1 1 6 5 6 6 0 2 2 1 2
ENSG00000233653.3 6 5 3 8 16 9 5 2 10 7 6 5 7 3 6 3 8 9 7 5 2 8 7 4 7 2 13 1 5 16
ENSG00000224813.2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
ENSG00000235249.1 0 3 3 0 2 1 0 1 1 1 2 1 0 2 2 0 3 3 2 1 0 1 3 0 0 0 5 0 1 3
ENSG00000269732.1 0 1 1 0 0 0 0 2 0 0 0 1 0 0 1 0 0 0 1 0 0 1 0 0 4 0 1 0 0 0
ENSG00000256186.1 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
ENSG00000236601.1 1 1 1 0 1 1 0 0 0 0 1 1 1 0 2 0 2 1 1 0 0 0 0 1 1 1 0 0 0 1
ENSG00000236743.1 1 1 1 0 9 0 0 2 2 0 3 0 3 0 2 2 4 3 3 0 2 1 0 0 2 0 3 1 0 1
ENSG00000236679.2 0 1 1 0 7 2 1 1 4 0 4 2 5 3 2 3 63 2 1 1 0 0 0 1 1 0 7 1 3 7
ENSG00000231709.1 0 0 3 0 9 2 1 2 1 0 2 2 6 0 5 3 5 6 10 0 1 4 2 11 6 2 2 1 2 1
ENSG00000235146.2 1 2 2 2 3 0 2 2 1 0 1 0 1 1 0 0 0 0 2 1 1 0 1 0 2 0 2 19 0 6
ENSG00000239664.2 3 0 2 1 2 1 1 2 0 0 0 0 0 0 2 0 2 2 1 0 0 0 0 0 0 0 0 9 0 5
ENSG00000230021.3 1 0 2 2 9 7 2 5 1 4 3 2 5 1 5 3 3 9 3 2 7 3 2 6 2 4 13 11 0 5
ENSG00000223659.1 1 1 0 0 1 0 0 0 2 1 1 1 0 1 2 1 0 2 2 0 0 0 0 0 2 0 5 0 0 1
ENSG00000225972.1 85 90 44 40 245 65 21820 82 72 66 99 54 137 18178 112 50 198 49 81 37 33 55 54 4678 50 25 132 23 37 330
ENSG00000225630.1 9976 21118 25431 14239 13191 9374 7184 15349 15277 11952 13275 7455 22629 10859 13990 6257 10602 14976 34546 6973 9934 18090 12782 8450 27107 7614 12211 8718 10398 64325
ENSG00000237973.1 763 2056 439 1787 3819 599 13349 1553 3465 732 598 640 3860 8778 841 1202 3276 4620 2456 347 2421 1134 483 136 2583 821 1117 242 232 6292
ENSG00000229344.1 201 317 158 175 646 181 396 262 332 187 265 132 574 188 375 201 320 319 211 132 108 161 164 85 212 88 651 93 125 694
ENSG00000240409.1 87 125 61 45 119 30 117 97 64 40 54 30 136 102 180 60 67 84 75 26 28 28 23 15 874 17 84 17 36 187
ENSG00000248527.1 40212 64520 22403 42558 59705 15094 38541 42834 35428 49856 34733 19953 78315 49299 26600 25829 35965 60613 36803 7805 32781 37487 34261 24593 54523 22813 32813 15457 24181 67070
ENSG00000198744.5 243 268 210 154 19806 152 360 272 263 214 335 181 809 183 665 231 512 322 270 97 146 120 183 43 291 70 656 76 217 910
ENSG00000268663.1 0 0 1 1 1 1 1 0 2 0 1 1 1 0 0 3 1 0 0 2 0 0 0 1 0 1 0 0 1 0
ENSG00000185097.2 1 0 0 0 1 0 2 1 2 0 1 1 0 2 2 0 1 1 1 0 0 1 1 0 1 0 0 1 0 2
ENSG00000229376.3 17 25 11 9 38 44 32 21 14 23 9 5 29 7 20 16 19 22 18 5 15 18 14 20 16 25 37 5 13 23
ENSG00000224956.5 403 143 366 232 281 435 256 347 164 441 385 247 283 9 737 202 79 434 242 243 217 260 331 284 676 130 218 195 204 323
ENSG00000235373.1 17 24 28 13 33 21 23 15 15 29 27 15 28 13 16 9 19 33 35 8 8 11 31 26 15 8 41 11 24 33
ENSG00000223181.1 0 1 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 0 0 0 1
ENSG00000240618.1 11 3 26 6 0 2 2 0 7 7 5 1 8 1 16 0 9 9 9 0 2 6 14 3 5 0 9 2 3 5
ENSG00000229905.1 0 0 0 2 2 0 4 0 0 1 1 0 0 1 1 0 3 1 0 1 1 0 1 0 0 0 0 1 0 1
ENSG00000228327.2 72 114 106 146 152 72 83 71 73 156 165 72 110 119 135 78 64 147 153 56 75 160 313 196 118 89 140 43 99 213
ENSG00000237491.4 96 113 101 125 306 209 116 53 66 215 159 60 175 153 241 95 152 161 224 64 240 166 638 342 155 108 110 224 90 283
ENSG00000230092.3 12 13 12 16 28 18 5 5 5 11 10 13 18 21 55 18 5 15 37 15 19 10 92 23 9 18 13 18 13 47
ENSG00000269831.1 0 0 0 0 0 0 1 1 0 0 0 0 1 0 1 3 0 1 1 0 1 1 1 1 0 0 0 0 0 0
ENSG00000240453.1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
ENSG00000177757.1 12 41 18 32 47 34 44 7 31 40 72 22 65 28 21 18 36 53 57 30 28 24 81 41 14 42 25 35 18 70
ENSG00000225880.4 297 223 279 158 198 728 317 295 118 401 342 173 271 256 724 184 110 331 249 228 347 411 1385 912 623 175 350 503 172 175
ENSG00000228794.4 1141 1444 1059 1056 1618 2003 1005 1375 1127 1371 2204 1366 1954 1118 1930 798 838 1251 1133 897 660 1033 1475 1710 1579 651 837 802 1499 2125
ENSG00000230368.2 7 1 1 2 11 8 2 8 3 2 3 1 5 3 14 7 2 3 5 3 5 6 0 58 10 0 3 0 4 9
ENSG00000234711.1 0 4 1 0 3 4 5 2 4 0 1 0 3 3 1 3 2 3 1 5 1 3 2 31 2 0 6 46 0 4
ENSG00000269308.1 0 0 0 0 2 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0
ENSG00000272438.1 5 1 3 0 8 17 3 20 9 8 3 1 8 2 7 4 3 4 3 2 1 1 26 7 19 2 6 3 3 2
ENSG00000230699.2 26 7 44 10 74 114 32 70 89 26 24 19 58 35 12 27 33 52 9 18 11 26 93 1393 61 23 42 38 28 31
ENSG00000241180.1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
ENSG00000223764.2 166 116 273 103 290 181 198 153 246 244 46 112 247 189 107 99 84 258 92 340 58 86 369 348 192 117 83 173 176 196
ENSG00000187634.6 348 283 286 182 654 3256 349 580 1210 541 58 239 700 336 152 246 115 782 224 761 165 249 573 908 503 430 160 625 364 885
ENSG00000268179.1 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 0 0
ENSG00000188976.6 3111 4934 3177 3286 4670 7739 2922 3236 3554 5370 5505 2641 4600 3396 5058 3223 2464 4601 4211 2414 2863 2831 5100 4272 6149 3130 3182 4305 3545 5177
ENSG00000187961.9 896 593 890 942 583 3737 854 1056 841 935 618 542 1355 863 2017 507 573 1059 724 656 1411 1234 2404 2519 1752 968 1092 1490 633 1874
ENSG00000187583.6 53 48 37 56 54 150 58 263 64 35 454 111 77 101 300 29 14 151 72 124 89 119 614 304 273 133 63 368 72 231
ENSG00000187642.5 19 31 14 22 27 109 26 89 10 22 97 45 32 25 90 22 16 64 31 77 18 63 207 95 105 46 24 181 72 113
ENSG00000272512.1 318 85 145 175 82 408 190 659 43 121 151 163 107 65 79 18 191 150 196 246 37 75 207 234 250 38 70 106 127 241
ENSG00000188290.6 854 354 725 367 238 810 631 1692 296 842 766 721 387 274 410 200 129 641 642 736 282 186 417 391 450 254 174 426 616 445
ENSG00000231702.2 1 4 1 4 1 17 1 1 1 1 5 2 7 2 3 1 4 1 1 4 15 3 5 2 1 4 25 0 2 6
ENSG00000224969.1 5 4 7 1 4 75 4 20 1 3 1 10 10 2 2 2 2 2 2 4 12 7 11 6 6 2 29 4 1 14
ENSG00000187608.5 614 584 1037 297 632 1380 396 3197 787 755 5505 484 663 710 443 611 174 1050 691 834 716 413 1231 1650 1622 732 353 1051 1034 710
ENSG00000188157.9 13046 17757 13573 14742 12621 40113 13808 13967 13776 16136 19950 19135 18902 18831 21424 9626 7208 17856 19340 9206 10900 12729 13701 21822 23783 9633 17342 10638 17499 10845
ENSG00000217801.5 179 34 186 100 112 183 123 115 166 188 74 72 70 79 254 114 51 162 92 106 361 154 483 158 422 86 229 298 137 178
ENSG00000273443.1 3 2 4 0 5 12 1 17 5 2 7 1 3 1 11 5 2 9 8 0 0 0 11 8 9 0 8 2 0 5
ENSG00000237330.2 3 4 3 1 12 5 9 10 7 5 4 5 7 3 6 6 10 6 4 1 4 0 2 6 8 0 7 5 2 8
ENSG00000131591.13 1647 872 1779 1242 1507 1195 1151 1473 753 1648 2192 1463 1699 1540 2700 985 690 1726 1394 993 757 928 2165 1676 2486 640 750 1832 1267 1514
ENSG00000223823.1 6 3 1 0 16 9 1 3 3 1 0 3 1 4 8 4 8 4 4 4 16 19 81 48 8 15 9 27 6 34
ENSG00000207730.1 0 0 1 2 2 3 0 1 0 1 0 0 2 1 5 0 1 1 0 1 3 0 1 0 2 1 3 0 0 0
ENSG00000207607.1 0 1 0 2 1 1 5 2 2 1 0 0 1 1 0 0 0 1 0 1 1 0 4 0 0 0 0 1 0 2
ENSG00000198976.1 1 0 2 1 1 4 1 0 2 0 1 1 2 7 1 0 1 4 1 0 2 1 2 1 4 1 0 1 0 0
ENSG00000272141.1 338 218 330 544 461 829 613 281 217 552 194 128 511 411 562 162 108 691 493 156 478 333 501 283 450 55 305 158 78 210
ENSG00000205231.1 10 6 8 8 25 10 12 7 3 20 7 2 8 9 19 8 10 22 10 8 19 12 23 12 26 1 9 20 2 38
ENSG00000162571.9 47 14 31 51 75 45 24 36 30 192 61 33 16 20 63 69 14 42 30 31 48 24 51 38 55 3 19 36 12 70
ENSG00000186891.9 32 11 41 23 37 263 14 124 31 28 114 600 22 29 197 39 23 204 66 138 154 127 1312 528 687 270 9 566 98 377
ENSG00000186827.6 366 329 308 362 295 419 83 201 244 252 448 191 95 175 690 120 71 338 407 239 284 219 2053 1042 876 328 138 382 174 549
ENSG00000078808.12 6325 11415 7244 6681 8001 16069 7918 6605 9729 10872 10761 7149 10552 8896 8649 6452 4655 9425 9384 7007 5031 5497 11858 10105 10908 10329 7330 7251 8946 7627
ENSG00000176022.3 767 1634 959 938 1476 1659 840 513 1468 1347 1430 570 1432 1360 661 761 636 1098 1576 817 499 554 1531 1257 1487 1299 623 1014 1271 1491
ENSG00000184163.3 79 44 46 40 76 94 65 50 62 57 194 81 66 69 55 18 16 52 34 83 42 44 50 37 85 41 34 48 32 73
ENSG00000260179.1 24 25 4 19 77 53 24 19 20 25 56 35 46 19 22 23 127 56 27 10 29 43 28 25 27 17 25 13 8 30
ENSG00000160087.16 2038 3378 1713 2236 2740 8086 2342 2341 2989 3222 3355 2407 3557 2605 3422 1696 1484 4060 2864 1664 2342 2287 4604 3685 3637 2710 2202 3297 2186 3400
ENSG00000230415.1 83 48 102 50 68 113 67 48 82 127 32 49 95 94 63 53 30 117 56 40 143 57 220 144 198 60 186 76 53 74
ENSG00000162572.15 1044 332 1193 581 677 2708 772 689 948 1382 265 469 755 1004 1277 526 254 1160 746 826 1617 785 2589 1535 2849 575 1515 918 720 1053
ENSG00000131584.14 6325 3683 5951 3606 4910 9622 3839 5792 3677 6961 2875 3224 7823 5214 5451 3173 2542 4972 5452 4347 3471 4136 8329 9033 8497 3493 2594 5850 4125 5342
ENSG00000169972.7 412 448 350 409 509 947 331 344 439 675 382 328 639 501 750 351 207 811 633 251 267 307 693 664 575 473 278 503 360 747
ENSG00000127054.14 8580 6876 8249 6986 7672 18996 7345 9752 7067 11663 8356 6811 10109 8198 17346 6006 4096 12994 7372 5965 8423 8452 15686 12536 14403 5409 11132 9282 6396 10527
ENSG00000240731.1 305 222 251 282 359 715 267 349 314 466 269 292 356 359 683 269 234 526 343 180 349 311 562 453 422 174 552 253 187 459
ENSG00000224051.2 1224 1655 1574 1198 1578 3155 1159 954 1692 1879 1391 1145 1912 1683 2324 1074 1152 1634 1337 1230 1101 1107 2464 2313 3042 1785 1227 2174 1566 2596
ENSG00000169962.4 103 131 88 73 80 660 115 192 116 112 82 157 99 107 223 63 36 232 100 84 170 241 1481 710 374 391 122 733 112 441
ENSG00000107404.13 5411 4415 5534 4810 4774 17137 4592 5723 4993 6692 5775 5918 7387 5839 9026 3745 3082 8265 6086 3969 3984 4702 7338 8266 8374 3795 5249 5436 4778 6645


Tabla 2: tabla que muestra los 100 primeros genes de la matriz cruda contenida en el archivo counts_sub.csv.


X Experiment SRA_Sample Sample_Name Grupo_analisis body_site molecular_data_type sex Group ShortName color
NIT_1 SRX624388 SRS645976 GTEX-ZAK1-0726-SM-5HL8Q 1 Thyroid RNA Seq (NGS) female NIT ZAK1-_NIT #238A8DFF
NIT_2 SRX567480 SRS626942 GTEX-111CU-0226-SM-5GZXC 1 Thyroid Allele-Specific Expression male NIT 111CU_NIT #238A8DFF
NIT_3 SRX641246 SRS650218 GTEX-1313W-0726-SM-5EGK1 1 Thyroid Allele-Specific Expression female NIT 1313W_NIT #238A8DFF
NIT_4 SRX618348 SRS644565 GTEX-13X6H-0526-SM-5LU4Q 1 Thyroid RNA Seq (NGS) female NIT 13X6H_NIT #238A8DFF
NIT_5 SRX199266 SRS333318 GTEX-PX3G-2626-SM-2I3EG 1 Thyroid RNA Seq (NGS) female NIT PX3G-_NIT #238A8DFF
NIT_6 SRX628518 SRS648208 GTEX-13PDP-1026-SM-5L3FA 1 Thyroid RNA Seq (NGS) male NIT 13PDP_NIT #238A8DFF
NIT_7 SRX578920 SRS629748 GTEX-11P7K-0226-SM-5986Z 1 Thyroid RNA Seq (NGS) male NIT 11P7K_NIT #238A8DFF
NIT_8 SRX633577 SRS648785 GTEX-1269C-0226-SM-5EGKS 1 Thyroid RNA Seq (NGS) female NIT 1269C_NIT #238A8DFF
NIT_9 SRX570501 SRS627527 GTEX-1399R-0126-SM-5IFEV 1 Thyroid RNA Seq (NGS) male NIT 1399R_NIT #238A8DFF
NIT_10 SRX630361 SRS648411 GTEX-13112-0326-SM-5P9IW 1 Thyroid Allele-Specific Expression male NIT 13112_NIT #238A8DFF
SFI_1 SRX614680 SRS644012 GTEX-13O1R-0826-SM-5J2MB 2 Thyroid RNA Seq (NGS) male SFI 13O1R_SFI #DCE319FF
SFI_2 SRX597654 SRS637303 GTEX-139UW-0126-SM-5KM1B 2 Thyroid Allele-Specific Expression male SFI 139UW_SFI #DCE319FF
SFI_3 SRX558144 SRS623916 GTEX-11EQ9-0626-SM-5A5K1 2 Thyroid RNA Seq (NGS) male SFI 11EQ9_SFI #DCE319FF
SFI_4 SRX622888 SRS645805 GTEX-S341-0226-SM-5S2VG 2 Thyroid RNA Seq (NGS) female SFI S341-_SFI #DCE319FF
SFI_5 SRX221390 SRS389060 GTEX-TSE9-0626-SM-3DB8B 2 Thyroid RNA Seq (NGS) female SFI TSE9-_SFI #DCE319FF
SFI_6 SRX567279 SRS626844 GTEX-12ZZY-0826-SM-5EQMT 2 Thyroid RNA Seq (NGS) male SFI 12ZZY_SFI #DCE319FF
SFI_7 SRX204008 SRS374961 GTEX-R55C-0626-SM-2TF4Q 2 Thyroid Allele-Specific Expression male SFI R55C-_SFI #DCE319FF
SFI_8 SRX260552 SRS408366 GTEX-WYVS-0326-SM-3NM9V 2 Thyroid RNA Seq (NGS) female SFI WYVS-_SFI #DCE319FF
SFI_9 SRX407488 SRS524425 GTEX-XMK1-0626-SM-4B65A 2 Thyroid RNA Seq (NGS) male SFI XMK1-_SFI #DCE319FF
SFI_10 SRX596158 SRS636581 GTEX-ZE7O-1126-SM-57WC8 2 Thyroid Allele-Specific Expression female SFI ZE7O-_SFI #DCE319FF
ELI_1 SRX607358 SRS639491 GTEX-14AS3-0226-SM-5Q5B6 3 Thyroid RNA Seq (NGS) female ELI 14AS3_ELI #481567FF
ELI_2 SRX601511 SRS638114 GTEX-13QJC-0826-SM-5RQKC 3 Thyroid Allele-Specific Expression female ELI 13QJC_ELI #481567FF
ELI_3 SRX615373 SRS644099 GTEX-YFC4-2626-SM-5P9FQ 3 Thyroid Allele-Specific Expression female ELI YFC4-_ELI #481567FF
ELI_4 SRX582762 SRS631169 GTEX-13NZ9-1126-SM-5MR37 3 Thyroid RNA Seq (NGS) male ELI 13NZ9_ELI #481567FF
ELI_5 SRX583148 SRS631283 GTEX-YJ89-0726-SM-5P9F7 3 Thyroid RNA Seq (NGS) male ELI YJ89-_ELI #481567FF
ELI_6 SRX568916 SRS627158 GTEX-14BMU-0226-SM-5S2QA 3 Thyroid Allele-Specific Expression female ELI 14BMU_ELI #481567FF
ELI_7 SRX199272 SRS333099 GTEX-PLZ4-1226-SM-2I5FE 3 Thyroid RNA Seq (NGS) female ELI PLZ4-_ELI #481567FF
ELI_8 SRX628009 SRS648152 GTEX-11NV4-0626-SM-5N9BR 3 Thyroid RNA Seq (NGS) male ELI 11NV4_ELI #481567FF
ELI_9 SRX575932 SRS629299 GTEX-14ABY-0926-SM-5Q5DY 3 Thyroid Allele-Specific Expression male ELI 14ABY_ELI #481567FF
ELI_10 SRX222429 SRS389623 GTEX-TMMY-0826-SM-33HB9 3 Thyroid Allele-Specific Expression female ELI TMMY-_ELI #481567FF


Tabla 3: tabla que muestra los metadatos relacionados con las 30 muestras seleccionadas.


Filtrando genes no expresados


Una vez creado el objeto DESeqDataSet, se ha realizado un filtrado con el objetivo de eliminar aquellos genes que no están expresados en ninguna de las 30 muestras. Este filtrado ha permitido eliminar 9421 genes, pasando de a 46781. A continuación se muestran los primeros 100 genes de la matriz de counts filtrada (Tabla 4).


NIT_1 NIT_2 NIT_3 NIT_4 NIT_5 NIT_6 NIT_7 NIT_8 NIT_9 NIT_10 SFI_1 SFI_2 SFI_3 SFI_4 SFI_5 SFI_6 SFI_7 SFI_8 SFI_9 SFI_10 ELI_1 ELI_2 ELI_3 ELI_4 ELI_5 ELI_6 ELI_7 ELI_8 ELI_9 ELI_10
ENSG00000223972.4 0 7 2 2 8 0 4 1 3 3 3 2 6 2 3 2 9 6 9 1 0 0 1 0 4 2 5 3 1 3
ENSG00000227232.4 555 401 890 468 636 1487 840 925 517 600 460 430 640 457 1704 491 302 820 568 713 834 825 1472 1002 1325 423 489 1301 775 979
ENSG00000243485.2 1 4 1 1 5 1 0 0 2 1 0 0 4 1 1 2 4 0 1 2 1 1 1 1 1 0 1 1 2 3
ENSG00000237613.2 2 2 0 0 2 0 0 0 1 0 1 0 3 2 1 0 2 1 1 0 1 0 0 0 0 0 3 0 0 2
ENSG00000268020.2 1 0 1 0 2 0 0 0 1 4 2 0 1 0 0 0 2 0 1 0 0 0 0 0 2 2 2 0 0 5
ENSG00000240361.1 1 0 0 1 3 2 2 0 3 0 0 0 3 2 0 0 0 4 0 0 0 1 1 1 1 1 1 1 0 8
ENSG00000186092.4 1 0 2 1 4 2 2 1 2 0 1 0 1 3 0 1 2 5 1 1 0 1 2 0 2 0 3 0 1 3
ENSG00000238009.2 5 6 5 8 4 26 7 17 8 9 7 9 5 9 5 7 10 12 5 18 6 10 38 15 4 18 7 5 10 4
ENSG00000233750.3 11 16 16 16 123 46 26 19 14 25 12 9 16 14 22 4 74 18 14 2 6 21 24 19 8 6 100 7 2 81
ENSG00000237683.5 326 744 1126 528 1400 2032 522 813 154 1184 279 679 415 565 2536 552 674 973 738 511 445 853 2020 602 853 325 523 1132 580 527
ENSG00000268903.1 1 1 6 1 2 7 2 2 1 3 2 1 0 5 9 2 4 0 1 4 2 6 13 2 7 1 2 4 1 1
ENSG00000239906.1 0 10 10 4 13 19 8 2 0 35 7 8 4 10 84 5 8 20 10 8 2 16 25 32 17 4 3 2 4 5
ENSG00000241860.2 31 58 52 71 138 140 42 40 65 80 41 95 66 47 120 102 116 101 67 70 40 94 196 96 94 41 183 46 69 115
ENSG00000222623.1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0
ENSG00000241599.1 0 2 0 0 1 0 1 0 2 1 1 0 1 0 4 1 1 4 1 1 0 0 0 0 0 1 1 0 1 3
ENSG00000228463.4 66 40 29 31 113 258 42 58 8 64 16 26 18 64 53 95 16 66 52 7 66 98 52 39 44 42 21 92 5 42
ENSG00000237094.7 36 24 63 21 50 101 30 41 19 69 37 10 26 27 99 39 22 43 30 63 38 58 70 43 64 14 95 16 11 46
ENSG00000250575.1 1 4 2 1 1 6 0 4 4 1 1 4 1 3 3 2 3 6 7 1 1 6 5 6 6 0 2 2 1 2
ENSG00000233653.3 6 5 3 8 16 9 5 2 10 7 6 5 7 3 6 3 8 9 7 5 2 8 7 4 7 2 13 1 5 16
ENSG00000235249.1 0 3 3 0 2 1 0 1 1 1 2 1 0 2 2 0 3 3 2 1 0 1 3 0 0 0 5 0 1 3
ENSG00000269732.1 0 1 1 0 0 0 0 2 0 0 0 1 0 0 1 0 0 0 1 0 0 1 0 0 4 0 1 0 0 0
ENSG00000256186.1 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
ENSG00000236601.1 1 1 1 0 1 1 0 0 0 0 1 1 1 0 2 0 2 1 1 0 0 0 0 1 1 1 0 0 0 1
ENSG00000236743.1 1 1 1 0 9 0 0 2 2 0 3 0 3 0 2 2 4 3 3 0 2 1 0 0 2 0 3 1 0 1
ENSG00000236679.2 0 1 1 0 7 2 1 1 4 0 4 2 5 3 2 3 63 2 1 1 0 0 0 1 1 0 7 1 3 7
ENSG00000231709.1 0 0 3 0 9 2 1 2 1 0 2 2 6 0 5 3 5 6 10 0 1 4 2 11 6 2 2 1 2 1
ENSG00000235146.2 1 2 2 2 3 0 2 2 1 0 1 0 1 1 0 0 0 0 2 1 1 0 1 0 2 0 2 19 0 6
ENSG00000239664.2 3 0 2 1 2 1 1 2 0 0 0 0 0 0 2 0 2 2 1 0 0 0 0 0 0 0 0 9 0 5
ENSG00000230021.3 1 0 2 2 9 7 2 5 1 4 3 2 5 1 5 3 3 9 3 2 7 3 2 6 2 4 13 11 0 5
ENSG00000223659.1 1 1 0 0 1 0 0 0 2 1 1 1 0 1 2 1 0 2 2 0 0 0 0 0 2 0 5 0 0 1
ENSG00000225972.1 85 90 44 40 245 65 21820 82 72 66 99 54 137 18178 112 50 198 49 81 37 33 55 54 4678 50 25 132 23 37 330
ENSG00000225630.1 9976 21118 25431 14239 13191 9374 7184 15349 15277 11952 13275 7455 22629 10859 13990 6257 10602 14976 34546 6973 9934 18090 12782 8450 27107 7614 12211 8718 10398 64325
ENSG00000237973.1 763 2056 439 1787 3819 599 13349 1553 3465 732 598 640 3860 8778 841 1202 3276 4620 2456 347 2421 1134 483 136 2583 821 1117 242 232 6292
ENSG00000229344.1 201 317 158 175 646 181 396 262 332 187 265 132 574 188 375 201 320 319 211 132 108 161 164 85 212 88 651 93 125 694
ENSG00000240409.1 87 125 61 45 119 30 117 97 64 40 54 30 136 102 180 60 67 84 75 26 28 28 23 15 874 17 84 17 36 187
ENSG00000248527.1 40212 64520 22403 42558 59705 15094 38541 42834 35428 49856 34733 19953 78315 49299 26600 25829 35965 60613 36803 7805 32781 37487 34261 24593 54523 22813 32813 15457 24181 67070
ENSG00000198744.5 243 268 210 154 19806 152 360 272 263 214 335 181 809 183 665 231 512 322 270 97 146 120 183 43 291 70 656 76 217 910
ENSG00000268663.1 0 0 1 1 1 1 1 0 2 0 1 1 1 0 0 3 1 0 0 2 0 0 0 1 0 1 0 0 1 0
ENSG00000185097.2 1 0 0 0 1 0 2 1 2 0 1 1 0 2 2 0 1 1 1 0 0 1 1 0 1 0 0 1 0 2
ENSG00000229376.3 17 25 11 9 38 44 32 21 14 23 9 5 29 7 20 16 19 22 18 5 15 18 14 20 16 25 37 5 13 23
ENSG00000224956.5 403 143 366 232 281 435 256 347 164 441 385 247 283 9 737 202 79 434 242 243 217 260 331 284 676 130 218 195 204 323
ENSG00000235373.1 17 24 28 13 33 21 23 15 15 29 27 15 28 13 16 9 19 33 35 8 8 11 31 26 15 8 41 11 24 33
ENSG00000223181.1 0 1 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 0 0 0 1
ENSG00000240618.1 11 3 26 6 0 2 2 0 7 7 5 1 8 1 16 0 9 9 9 0 2 6 14 3 5 0 9 2 3 5
ENSG00000229905.1 0 0 0 2 2 0 4 0 0 1 1 0 0 1 1 0 3 1 0 1 1 0 1 0 0 0 0 1 0 1
ENSG00000228327.2 72 114 106 146 152 72 83 71 73 156 165 72 110 119 135 78 64 147 153 56 75 160 313 196 118 89 140 43 99 213
ENSG00000237491.4 96 113 101 125 306 209 116 53 66 215 159 60 175 153 241 95 152 161 224 64 240 166 638 342 155 108 110 224 90 283
ENSG00000230092.3 12 13 12 16 28 18 5 5 5 11 10 13 18 21 55 18 5 15 37 15 19 10 92 23 9 18 13 18 13 47
ENSG00000269831.1 0 0 0 0 0 0 1 1 0 0 0 0 1 0 1 3 0 1 1 0 1 1 1 1 0 0 0 0 0 0
ENSG00000177757.1 12 41 18 32 47 34 44 7 31 40 72 22 65 28 21 18 36 53 57 30 28 24 81 41 14 42 25 35 18 70
ENSG00000225880.4 297 223 279 158 198 728 317 295 118 401 342 173 271 256 724 184 110 331 249 228 347 411 1385 912 623 175 350 503 172 175
ENSG00000228794.4 1141 1444 1059 1056 1618 2003 1005 1375 1127 1371 2204 1366 1954 1118 1930 798 838 1251 1133 897 660 1033 1475 1710 1579 651 837 802 1499 2125
ENSG00000230368.2 7 1 1 2 11 8 2 8 3 2 3 1 5 3 14 7 2 3 5 3 5 6 0 58 10 0 3 0 4 9
ENSG00000234711.1 0 4 1 0 3 4 5 2 4 0 1 0 3 3 1 3 2 3 1 5 1 3 2 31 2 0 6 46 0 4
ENSG00000269308.1 0 0 0 0 2 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0
ENSG00000272438.1 5 1 3 0 8 17 3 20 9 8 3 1 8 2 7 4 3 4 3 2 1 1 26 7 19 2 6 3 3 2
ENSG00000230699.2 26 7 44 10 74 114 32 70 89 26 24 19 58 35 12 27 33 52 9 18 11 26 93 1393 61 23 42 38 28 31
ENSG00000223764.2 166 116 273 103 290 181 198 153 246 244 46 112 247 189 107 99 84 258 92 340 58 86 369 348 192 117 83 173 176 196
ENSG00000187634.6 348 283 286 182 654 3256 349 580 1210 541 58 239 700 336 152 246 115 782 224 761 165 249 573 908 503 430 160 625 364 885
ENSG00000268179.1 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 0 0
ENSG00000188976.6 3111 4934 3177 3286 4670 7739 2922 3236 3554 5370 5505 2641 4600 3396 5058 3223 2464 4601 4211 2414 2863 2831 5100 4272 6149 3130 3182 4305 3545 5177
ENSG00000187961.9 896 593 890 942 583 3737 854 1056 841 935 618 542 1355 863 2017 507 573 1059 724 656 1411 1234 2404 2519 1752 968 1092 1490 633 1874
ENSG00000187583.6 53 48 37 56 54 150 58 263 64 35 454 111 77 101 300 29 14 151 72 124 89 119 614 304 273 133 63 368 72 231
ENSG00000187642.5 19 31 14 22 27 109 26 89 10 22 97 45 32 25 90 22 16 64 31 77 18 63 207 95 105 46 24 181 72 113
ENSG00000272512.1 318 85 145 175 82 408 190 659 43 121 151 163 107 65 79 18 191 150 196 246 37 75 207 234 250 38 70 106 127 241
ENSG00000188290.6 854 354 725 367 238 810 631 1692 296 842 766 721 387 274 410 200 129 641 642 736 282 186 417 391 450 254 174 426 616 445
ENSG00000231702.2 1 4 1 4 1 17 1 1 1 1 5 2 7 2 3 1 4 1 1 4 15 3 5 2 1 4 25 0 2 6
ENSG00000224969.1 5 4 7 1 4 75 4 20 1 3 1 10 10 2 2 2 2 2 2 4 12 7 11 6 6 2 29 4 1 14
ENSG00000187608.5 614 584 1037 297 632 1380 396 3197 787 755 5505 484 663 710 443 611 174 1050 691 834 716 413 1231 1650 1622 732 353 1051 1034 710
ENSG00000188157.9 13046 17757 13573 14742 12621 40113 13808 13967 13776 16136 19950 19135 18902 18831 21424 9626 7208 17856 19340 9206 10900 12729 13701 21822 23783 9633 17342 10638 17499 10845
ENSG00000217801.5 179 34 186 100 112 183 123 115 166 188 74 72 70 79 254 114 51 162 92 106 361 154 483 158 422 86 229 298 137 178
ENSG00000273443.1 3 2 4 0 5 12 1 17 5 2 7 1 3 1 11 5 2 9 8 0 0 0 11 8 9 0 8 2 0 5
ENSG00000237330.2 3 4 3 1 12 5 9 10 7 5 4 5 7 3 6 6 10 6 4 1 4 0 2 6 8 0 7 5 2 8
ENSG00000131591.13 1647 872 1779 1242 1507 1195 1151 1473 753 1648 2192 1463 1699 1540 2700 985 690 1726 1394 993 757 928 2165 1676 2486 640 750 1832 1267 1514
ENSG00000223823.1 6 3 1 0 16 9 1 3 3 1 0 3 1 4 8 4 8 4 4 4 16 19 81 48 8 15 9 27 6 34
ENSG00000207730.1 0 0 1 2 2 3 0 1 0 1 0 0 2 1 5 0 1 1 0 1 3 0 1 0 2 1 3 0 0 0
ENSG00000207607.1 0 1 0 2 1 1 5 2 2 1 0 0 1 1 0 0 0 1 0 1 1 0 4 0 0 0 0 1 0 2
ENSG00000198976.1 1 0 2 1 1 4 1 0 2 0 1 1 2 7 1 0 1 4 1 0 2 1 2 1 4 1 0 1 0 0
ENSG00000272141.1 338 218 330 544 461 829 613 281 217 552 194 128 511 411 562 162 108 691 493 156 478 333 501 283 450 55 305 158 78 210
ENSG00000205231.1 10 6 8 8 25 10 12 7 3 20 7 2 8 9 19 8 10 22 10 8 19 12 23 12 26 1 9 20 2 38
ENSG00000162571.9 47 14 31 51 75 45 24 36 30 192 61 33 16 20 63 69 14 42 30 31 48 24 51 38 55 3 19 36 12 70
ENSG00000186891.9 32 11 41 23 37 263 14 124 31 28 114 600 22 29 197 39 23 204 66 138 154 127 1312 528 687 270 9 566 98 377
ENSG00000186827.6 366 329 308 362 295 419 83 201 244 252 448 191 95 175 690 120 71 338 407 239 284 219 2053 1042 876 328 138 382 174 549
ENSG00000078808.12 6325 11415 7244 6681 8001 16069 7918 6605 9729 10872 10761 7149 10552 8896 8649 6452 4655 9425 9384 7007 5031 5497 11858 10105 10908 10329 7330 7251 8946 7627
ENSG00000176022.3 767 1634 959 938 1476 1659 840 513 1468 1347 1430 570 1432 1360 661 761 636 1098 1576 817 499 554 1531 1257 1487 1299 623 1014 1271 1491
ENSG00000184163.3 79 44 46 40 76 94 65 50 62 57 194 81 66 69 55 18 16 52 34 83 42 44 50 37 85 41 34 48 32 73
ENSG00000260179.1 24 25 4 19 77 53 24 19 20 25 56 35 46 19 22 23 127 56 27 10 29 43 28 25 27 17 25 13 8 30
ENSG00000160087.16 2038 3378 1713 2236 2740 8086 2342 2341 2989 3222 3355 2407 3557 2605 3422 1696 1484 4060 2864 1664 2342 2287 4604 3685 3637 2710 2202 3297 2186 3400
ENSG00000230415.1 83 48 102 50 68 113 67 48 82 127 32 49 95 94 63 53 30 117 56 40 143 57 220 144 198 60 186 76 53 74
ENSG00000162572.15 1044 332 1193 581 677 2708 772 689 948 1382 265 469 755 1004 1277 526 254 1160 746 826 1617 785 2589 1535 2849 575 1515 918 720 1053
ENSG00000131584.14 6325 3683 5951 3606 4910 9622 3839 5792 3677 6961 2875 3224 7823 5214 5451 3173 2542 4972 5452 4347 3471 4136 8329 9033 8497 3493 2594 5850 4125 5342
ENSG00000169972.7 412 448 350 409 509 947 331 344 439 675 382 328 639 501 750 351 207 811 633 251 267 307 693 664 575 473 278 503 360 747
ENSG00000127054.14 8580 6876 8249 6986 7672 18996 7345 9752 7067 11663 8356 6811 10109 8198 17346 6006 4096 12994 7372 5965 8423 8452 15686 12536 14403 5409 11132 9282 6396 10527
ENSG00000240731.1 305 222 251 282 359 715 267 349 314 466 269 292 356 359 683 269 234 526 343 180 349 311 562 453 422 174 552 253 187 459
ENSG00000224051.2 1224 1655 1574 1198 1578 3155 1159 954 1692 1879 1391 1145 1912 1683 2324 1074 1152 1634 1337 1230 1101 1107 2464 2313 3042 1785 1227 2174 1566 2596
ENSG00000169962.4 103 131 88 73 80 660 115 192 116 112 82 157 99 107 223 63 36 232 100 84 170 241 1481 710 374 391 122 733 112 441
ENSG00000107404.13 5411 4415 5534 4810 4774 17137 4592 5723 4993 6692 5775 5918 7387 5839 9026 3745 3082 8265 6086 3969 3984 4702 7338 8266 8374 3795 5249 5436 4778 6645
ENSG00000162576.12 9211 8502 9092 10644 8504 10171 6366 8490 11198 15906 5771 7876 11217 6591 8388 10148 3659 10514 9340 11482 6480 5189 8207 10450 9912 5679 6604 4820 9702 2971
ENSG00000175756.9 2879 4431 3369 2509 3735 6832 2855 2900 3132 3830 5132 2688 4287 3633 2946 2111 1685 3523 4423 1996 2182 2241 4725 3764 4650 3231 2088 3626 3545 3826
ENSG00000223663.2 3 12 5 4 5 20 7 6 0 3 6 1 6 3 3 3 4 2 8 0 0 5 6 0 2 0 8 3 1 4


Tabla 4: tabla que muestra los 100 primeros genes de la matriz cruda filtrada.


Transformación vst


Préviamente al control de calidad, se ha realizado una transformación vst con el objetivo de estabilizar la varianza, reducir el sesgo y normalizar los datos. Podemos visualizar parte del resultado de esta transformación analizando el contenido de la Tabla 5, que contiene los 100 primeros genes de la matriz de counts normalizada.


NIT_1 NIT_2 NIT_3 NIT_4 NIT_5 NIT_6 NIT_7 NIT_8 NIT_9 NIT_10 SFI_1 SFI_2 SFI_3 SFI_4 SFI_5 SFI_6 SFI_7 SFI_8 SFI_9 SFI_10 ELI_1 ELI_2 ELI_3 ELI_4 ELI_5 ELI_6 ELI_7 ELI_8 ELI_9 ELI_10
ENSG00000223972.4 4.214794 5.094837 4.720677 4.749960 5.091288 4.214794 4.983472 4.579396 4.777543 4.737504 4.805028 4.747693 4.971263 4.714860 4.693056 4.736153 5.396492 4.908645 5.237513 4.607337 4.214794 4.214794 4.484441 4.214794 4.777859 4.756698 4.914162 4.798252 4.531836 4.714171
ENSG00000227232.4 9.477658 8.796351 10.054278 9.325032 9.224970 9.629893 10.192608 10.154428 9.048699 9.048079 9.021579 9.198377 9.213594 9.106962 10.236705 9.318384 8.901915 9.310563 9.345618 9.998614 10.075999 9.989575 9.957695 9.760677 9.944949 9.222075 8.881376 10.422059 9.520491 9.588688
ENSG00000243485.2 4.583370 4.884380 4.573419 4.594292 4.911636 4.453179 4.214794 4.214794 4.675238 4.517678 4.214794 4.214794 4.834767 4.569275 4.491760 4.736153 5.014522 4.214794 4.562045 4.768248 4.588082 4.578695 4.484441 4.519077 4.497664 4.214794 4.530005 4.553178 4.662265 4.714171
ENSG00000237613.2 4.734641 4.690368 4.214794 4.214794 4.658067 4.214794 4.214794 4.214794 4.541065 4.214794 4.557144 4.214794 4.752726 4.714860 4.491760 4.214794 4.783859 4.500329 4.562045 4.214794 4.588082 4.214794 4.214794 4.214794 4.214794 4.214794 4.758617 4.214794 4.214794 4.623207
ENSG00000268020.2 4.583370 4.214794 4.573419 4.214794 4.658067 4.214794 4.214794 4.214794 4.541065 4.817287 4.697827 4.214794 4.526564 4.214794 4.214794 4.214794 4.783859 4.214794 4.562045 4.214794 4.214794 4.214794 4.214794 4.214794 4.614196 4.756698 4.659692 4.214794 4.214794 4.857385
ENSG00000240361.1 4.583370 4.214794 4.214794 4.594292 4.756638 4.551540 4.761507 4.214794 4.777543 4.214794 4.214794 4.214794 4.752726 4.714860 4.214794 4.214794 4.214794 4.783115 4.214794 4.214794 4.214794 4.578695 4.484441 4.519077 4.497664 4.599098 4.530005 4.553178 4.214794 5.023712
ENSG00000186092.4 4.583370 4.214794 4.720677 4.594292 4.839259 4.551540 4.761507 4.579396 4.675238 4.214794 4.557144 4.214794 4.526564 4.825743 4.214794 4.584448 4.783859 4.849189 4.562045 4.607337 4.214794 4.578695 4.595581 4.214794 4.614196 4.214794 4.758617 4.214794 4.531836 4.714171
ENSG00000238009.2 5.030297 5.031305 5.008714 5.267746 4.839259 5.398246 5.223084 5.660797 5.124452 5.110652 5.108342 5.324147 4.906642 5.258034 4.830379 5.177520 5.456815 5.187029 4.984002 5.803809 5.116941 5.339874 5.798678 5.364775 4.777859 5.773200 5.039162 4.964708 5.200123 4.790480
ENSG00000233750.3 5.406388 5.520950 5.599252 5.674145 7.163805 5.758706 6.067788 5.736728 5.404218 5.669571 5.372222 5.324147 5.428218 5.501414 5.475386 4.948202 7.160013 5.395009 5.476620 4.768248 5.116941 5.805075 5.495267 5.500610 5.006192 5.142843 6.946443 5.098258 4.662265 6.556828
ENSG00000237683.5 8.760188 9.633223 10.383171 9.489792 10.314721 10.062504 9.533344 9.974581 7.508764 9.979255 8.362762 9.824483 8.634970 9.394884 10.795880 9.478276 9.998727 9.544402 9.704728 9.538160 9.211508 10.036026 10.399817 9.065005 9.338658 8.867750 8.971220 10.227047 9.125982 8.751792
ENSG00000268903.1 4.583370 4.551833 5.082374 4.594292 4.658067 4.841286 4.761507 4.729065 4.541065 4.737504 4.697827 4.592675 4.214794 4.999715 5.035842 4.736153 5.014522 4.214794 4.562045 4.992841 4.741251 5.094822 5.170845 4.644325 4.956210 4.599098 4.659692 4.887016 4.531836 4.504066
ENSG00000239906.1 4.214794 5.260021 5.324247 4.967416 5.321999 5.233761 5.289735 4.729065 4.214794 5.910636 5.108342 5.263424 4.834767 5.311951 6.507974 5.032632 5.332178 5.455264 5.290460 5.302553 4.741251 5.618258 5.520020 5.850277 5.353198 4.976788 4.758617 4.692257 4.845128 4.857385
ENSG00000241860.2 6.128989 6.530668 6.545637 6.979051 7.293221 6.714131 6.491466 6.331772 6.577757 6.634929 6.241290 7.291415 6.504546 6.427703 6.864856 7.321988 7.680924 6.750034 6.732255 7.037113 6.374792 7.194004 7.344515 6.829037 6.658800 6.451866 7.631226 6.322563 6.579792 6.911833
ENSG00000222623.1 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.500329 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794
ENSG00000241599.1 4.214794 4.690368 4.214794 4.214794 4.528849 4.214794 4.602528 4.214794 4.675238 4.517678 4.557144 4.214794 4.526564 4.214794 4.766213 4.584448 4.618479 4.783115 4.562045 4.607337 4.214794 4.214794 4.214794 4.214794 4.214794 4.599098 4.530005 4.214794 4.531836 4.714171
ENSG00000228463.4 6.839856 6.192688 6.029085 6.178665 7.070341 7.376431 6.491466 6.685658 5.124452 6.420979 5.540293 6.025850 5.497435 6.727804 6.097716 7.241293 5.759898 6.340660 6.483732 5.235171 6.866513 7.240786 6.038254 6.002061 5.981638 6.474542 5.607442 7.009815 4.918161 5.980371
ENSG00000237094.7 6.257348 5.790243 6.735524 5.867092 6.263385 6.398692 6.187563 6.354132 5.587624 6.491612 6.153024 5.381153 5.736135 5.954101 6.668270 6.333895 5.998608 5.978357 6.004393 6.924090 6.328213 6.681782 6.290406 6.080958 6.296126 5.602823 6.892130 5.525852 5.246306 6.053106
ENSG00000250575.1 4.583370 4.884380 4.720677 4.594292 4.528849 4.795453 4.214794 4.938333 4.863255 4.517678 4.557144 4.964262 4.526564 4.825743 4.693056 4.736153 4.909548 4.908645 5.120791 4.607337 4.588082 5.094822 4.814298 4.953421 4.902267 4.214794 4.659692 4.692257 4.531836 4.623207
ENSG00000233653.3 5.105843 4.961779 4.832815 5.267746 5.436649 4.923613 5.071750 4.729065 5.227814 5.007607 5.043889 5.050448 5.030363 4.825743 4.888132 4.851623 5.332178 5.060631 5.120791 5.082136 4.741251 5.225966 4.922145 4.820040 4.956210 4.756698 5.325900 4.553178 4.918161 5.344719
ENSG00000235249.1 4.214794 4.795954 4.832815 4.214794 4.658067 4.453179 4.214794 4.579396 4.541065 4.517678 4.697827 4.592675 4.214794 4.714860 4.605886 4.214794 4.909548 4.707761 4.704710 4.607337 4.214794 4.578695 4.680492 4.214794 4.214794 4.214794 4.914162 4.214794 4.531836 4.714171
ENSG00000269732.1 4.214794 4.551833 4.573419 4.214794 4.214794 4.214794 4.214794 4.729065 4.214794 4.214794 4.214794 4.592675 4.214794 4.214794 4.491760 4.214794 4.214794 4.214794 4.562045 4.214794 4.214794 4.578695 4.214794 4.214794 4.777859 4.214794 4.530005 4.214794 4.214794 4.214794
ENSG00000256186.1 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.541065 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794
ENSG00000236601.1 4.583370 4.551833 4.573419 4.214794 4.528849 4.453179 4.214794 4.214794 4.214794 4.214794 4.557144 4.592675 4.526564 4.214794 4.605886 4.214794 4.783859 4.500329 4.562045 4.214794 4.214794 4.214794 4.214794 4.519077 4.497664 4.599098 4.214794 4.214794 4.214794 4.504066
ENSG00000236743.1 4.583370 4.551833 4.573419 4.214794 5.142741 4.214794 4.214794 4.729065 4.675238 4.214794 4.805028 4.214794 4.752726 4.214794 4.605886 4.736153 5.014522 4.707761 4.813400 4.214794 4.741251 4.578695 4.214794 4.214794 4.614196 4.214794 4.758617 4.553178 4.214794 4.504066
ENSG00000236679.2 4.214794 4.551833 4.573419 4.214794 5.036207 4.551540 4.602528 4.579396 4.863255 4.214794 4.894789 4.747693 4.906642 4.825743 4.605886 4.851623 6.984188 4.617948 4.562045 4.607337 4.214794 4.214794 4.214794 4.519077 4.497664 4.214794 5.039162 4.553178 4.761750 4.972673
ENSG00000231709.1 4.214794 4.214794 4.832815 4.214794 5.142741 4.551540 4.602528 4.729065 4.541065 4.214794 4.697827 4.747693 4.971263 4.214794 4.830379 4.851623 5.106164 4.908645 5.290460 4.214794 4.588082 4.936962 4.595581 5.206233 4.902267 4.756698 4.659692 4.553178 4.662265 4.504066
ENSG00000235146.2 4.583370 4.690368 4.720677 4.749960 4.756638 4.214794 4.761507 4.729065 4.541065 4.214794 4.557144 4.214794 4.526564 4.569275 4.214794 4.214794 4.214794 4.214794 4.704710 4.607337 4.588082 4.214794 4.484441 4.214794 4.614196 4.214794 4.659692 5.635102 4.214794 4.917581
ENSG00000239664.2 4.849785 4.214794 4.720677 4.594292 4.658067 4.453179 4.602528 4.729065 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.605886 4.214794 4.783859 4.617948 4.562045 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 5.212286 4.214794 4.857385
ENSG00000230021.3 4.583370 4.214794 4.720677 4.749960 5.142741 4.841286 4.761507 5.021681 4.541065 4.817287 4.805028 4.747693 4.906642 4.569275 4.830379 4.851623 4.909548 5.060631 4.813400 4.768248 5.186695 4.841814 4.595581 4.953421 4.614196 4.976788 5.325900 5.312956 4.214794 4.857385
ENSG00000223659.1 4.583370 4.551833 4.214794 4.214794 4.528849 4.214794 4.214794 4.214794 4.675238 4.517678 4.557144 4.592675 4.214794 4.569275 4.605886 4.584448 4.214794 4.617948 4.704710 4.214794 4.214794 4.214794 4.214794 4.214794 4.614196 4.214794 4.914162 4.214794 4.214794 4.504066
ENSG00000225972.1 7.110819 6.977566 6.388306 6.405309 7.978438 6.019011 14.847394 7.047645 6.678662 6.449687 7.115331 6.686142 7.268327 14.324590 6.793271 6.566603 8.347939 6.083417 6.929154 6.396116 6.203837 6.629000 6.068910 11.934969 6.084555 6.021584 7.251206 5.765598 6.025879 8.145157
ENSG00000225630.1 13.573812 14.394469 14.841906 14.170367 13.512986 12.228907 13.248296 14.162501 13.834435 13.266634 13.771371 13.227097 14.268582 13.583045 13.234917 12.911856 13.924769 13.420702 15.189986 13.241105 13.604490 14.393531 13.027993 12.781930 14.247431 13.306156 13.412587 13.133088 13.198275 15.557291
ENSG00000237973.1 9.916680 11.056683 9.084291 11.196149 11.735864 8.411493 14.139627 10.883073 11.706408 9.317166 9.376849 9.742666 11.730180 13.277151 9.261831 10.560557 12.238104 11.734887 11.394388 9.012450 11.580956 10.434323 8.452742 7.205108 10.881666 10.135684 10.009637 8.151112 7.934326 12.213692
ENSG00000229344.1 8.133597 8.487419 7.766708 8.033241 9.246132 6.981635 9.156985 8.445117 8.462734 7.561643 8.296596 7.676465 9.066584 7.951631 8.196647 8.141020 8.979355 8.069529 8.043927 7.769098 7.410406 7.825482 7.143534 6.704637 7.547777 7.243137 9.266615 7.021497 7.203008 9.119827
ENSG00000240409.1 7.136486 7.342230 6.702928 6.516042 7.127169 5.480942 7.594108 7.233592 6.562702 6.014861 6.492432 6.143568 7.260036 7.226468 7.308565 6.747827 7.050729 6.566784 6.848211 6.088145 6.065936 6.024481 5.469901 5.364775 9.371811 5.732980 6.764482 5.563531 6.003987 7.453168
ENSG00000248527.1 15.581600 16.004069 14.659256 15.748015 15.687713 12.911923 15.667349 15.641238 15.045878 15.323015 15.156599 14.643923 16.057768 15.762307 14.159314 14.952034 15.684596 15.433997 15.281203 13.403136 15.323905 15.443441 14.446425 14.318161 15.254245 14.885761 14.835589 13.956681 14.412594 15.617534
ENSG00000198744.5 8.375941 8.270789 8.119421 7.874529 14.097841 6.797982 9.028529 8.493777 8.163763 7.723106 8.600564 8.064738 9.533209 7.918228 8.945248 8.318318 9.618261 8.081293 8.357317 7.403183 7.768638 7.473444 7.266312 6.080958 7.931442 6.991004 9.277010 6.808033 7.851872 9.488384
ENSG00000268663.1 4.214794 4.214794 4.573419 4.594292 4.528849 4.453179 4.602528 4.214794 4.675238 4.214794 4.557144 4.592675 4.526564 4.214794 4.214794 4.851623 4.618479 4.214794 4.214794 4.768248 4.214794 4.214794 4.214794 4.519077 4.214794 4.599098 4.214794 4.214794 4.531836 4.214794
ENSG00000185097.2 4.583370 4.214794 4.214794 4.214794 4.528849 4.214794 4.761507 4.579396 4.675238 4.214794 4.557144 4.592675 4.214794 4.714860 4.605886 4.214794 4.618479 4.500329 4.562045 4.214794 4.214794 4.578695 4.484441 4.214794 4.497664 4.214794 4.214794 4.553178 4.214794 4.623207
ENSG00000229376.3 5.675421 5.819770 5.375707 5.328697 6.032040 5.727595 6.243440 5.807877 5.404218 5.614495 5.223577 5.050448 5.813873 5.139131 5.419975 5.638926 5.885269 5.512106 5.633726 5.082136 5.609606 5.696766 5.205602 5.531893 5.320801 6.021584 6.016564 4.964708 5.332074 5.555636
ENSG00000224956.5 9.043192 7.498331 8.840768 8.391955 8.150551 8.004682 8.576125 8.814075 7.583120 8.638535 8.784005 8.461967 8.140975 5.258034 9.083272 8.147298 7.233140 8.462975 8.217096 8.540427 8.263427 8.430169 7.972107 8.083873 9.023976 7.698907 7.843244 7.881342 7.776334 8.118067
ENSG00000235373.1 5.675421 5.790243 6.001046 5.539961 5.921237 5.283829 5.969689 5.579228 5.443644 5.772146 5.900354 5.625616 5.788542 5.457347 5.298686 5.300956 5.885269 5.779865 6.130289 5.302553 5.251134 5.391986 5.657447 5.702427 5.287235 5.280583 6.100103 5.312956 5.704086 5.798582
ENSG00000223181.1 4.214794 4.551833 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.491760 4.214794 4.214794 4.214794 4.214794 4.214794 4.741251 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.504066
ENSG00000240618.1 5.406388 4.795954 5.942951 5.131550 4.214794 4.551540 4.761507 4.214794 5.067404 5.007607 4.973341 4.592675 5.085074 4.569275 5.298686 4.214794 5.396492 5.060631 5.237513 4.214794 4.741251 5.094822 5.205602 4.739902 4.843340 4.214794 5.146056 4.692257 4.761750 4.857385
ENSG00000229905.1 4.214794 4.214794 4.214794 4.749960 4.658067 4.214794 4.983472 4.214794 4.214794 4.517678 4.557144 4.214794 4.214794 4.569275 4.491760 4.214794 4.909548 4.500329 4.214794 4.607337 4.588082 4.214794 4.484441 4.214794 4.214794 4.214794 4.214794 4.553178 4.214794 4.504066
ENSG00000228327.2 6.931304 7.237536 7.296409 7.809094 7.404102 6.102327 7.197514 6.893469 6.692479 7.350222 7.706136 6.984845 7.025132 7.402360 6.989779 7.023407 7.001125 7.149544 7.649673 6.800949 7.002300 7.817857 7.902800 7.628583 6.891625 7.255892 7.318025 6.262537 6.948123 7.606670
ENSG00000237491.4 7.246481 7.227619 7.241682 7.621459 8.258948 7.138421 7.583903 6.596410 6.592645 7.728747 7.661550 6.793129 7.551855 7.699467 7.650027 7.241293 8.012517 7.251357 8.119115 6.940814 8.392884 7.863007 8.818352 8.320135 7.187573 7.478540 7.049050 8.053721 6.847679 7.952565
ENSG00000230092.3 5.456381 5.399226 5.424552 5.674145 5.799085 5.207620 5.071750 5.021681 4.938308 5.201828 5.275863 5.534649 5.497435 5.767314 6.128548 5.718411 5.106164 5.296925 6.177291 5.676477 5.770050 5.339874 6.543690 5.620518 5.052926 5.773200 5.325900 5.599913 5.332074 6.070636
ENSG00000269831.1 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.602528 4.579396 4.214794 4.214794 4.214794 4.214794 4.526564 4.214794 4.491760 4.851623 4.214794 4.500329 4.562045 4.214794 4.588082 4.578695 4.484441 4.519077 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794
ENSG00000177757.1 5.456381 6.213971 5.676857 6.205917 6.209401 5.557411 6.535908 5.164753 5.932074 6.014861 6.776500 5.895599 6.490031 5.982566 5.448064 5.718411 6.422891 6.148809 6.571794 6.208905 6.065936 5.904090 6.423147 6.042142 5.252383 6.474542 5.724195 6.087104 5.517849 6.418497
ENSG00000225880.4 8.637282 8.038088 8.483605 7.906153 7.717067 8.666077 8.858363 8.599803 7.203008 8.514090 8.627700 8.008137 8.086321 8.342091 9.059310 8.029851 7.617280 8.116017 8.253459 8.457481 8.877080 9.035110 9.873120 9.630849 8.914603 8.064979 8.441382 9.110355 7.571249 7.376269
ENSG00000228794.4 10.479037 10.557424 10.297167 10.452777 10.517903 10.042478 10.443915 10.711076 10.118564 10.183680 11.199887 10.803390 10.763189 10.340400 10.411246 9.987163 10.302810 9.891289 10.301037 10.319211 9.751198 10.303472 9.960525 10.506427 10.189347 9.813118 9.610238 9.747794 10.437238 10.669422
ENSG00000230368.2 5.174798 4.551833 4.573419 4.749960 5.236941 4.883806 4.761507 5.227848 4.777543 4.642357 4.805028 4.592675 4.906642 4.825743 5.231524 5.177520 4.783859 4.707761 4.984002 4.890602 5.040505 5.094822 4.214794 6.339228 5.096933 4.214794 4.758617 4.214794 4.845128 5.071424
ENSG00000234711.1 4.214794 4.884380 4.573419 4.214794 4.756638 4.689957 5.071750 4.729065 4.863255 4.214794 4.557144 4.214794 4.752726 4.825743 4.491760 4.851623 4.783859 4.707761 4.562045 5.082136 4.588082 4.841814 4.595581 5.826917 4.614196 4.214794 4.979455 6.322563 4.214794 4.790480
ENSG00000269308.1 4.214794 4.214794 4.214794 4.214794 4.658067 4.214794 4.214794 4.214794 4.541065 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.588082 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794
ENSG00000272438.1 5.030297 4.551833 4.832815 4.214794 5.091288 5.180660 4.882418 5.772856 5.177720 5.060875 4.805028 4.592675 5.085074 4.714860 4.941010 4.948202 4.909548 4.783115 4.813400 4.768248 4.588082 4.578695 5.544195 5.011193 5.414869 4.756698 4.979455 4.798252 4.761750 4.623207
ENSG00000230699.2 5.985943 5.094837 6.388306 5.385913 6.629747 6.512342 6.243440 6.878559 6.896358 5.696108 5.812923 5.787599 6.383691 6.165239 5.158775 6.020612 6.343060 6.132779 5.237513 5.803809 5.420877 5.965784 6.554124 10.218867 6.253658 5.955732 6.120138 6.155780 5.812838 5.754038
ENSG00000223764.2 7.894624 7.257162 8.455363 7.393950 8.190526 6.981635 8.243943 7.768012 8.079412 7.883305 6.343693 7.481426 7.970311 7.958219 6.746545 7.287972 7.302634 7.806511 7.066232 8.985109 6.733377 7.095458 8.108226 8.342490 7.431600 7.572871 6.752263 7.735079 7.598566 7.508210
ENSG00000187634.6 8.846884 8.340647 8.515866 8.082452 9.262840 10.724012 8.986877 9.508161 10.217826 8.909351 6.560958 8.419287 9.335348 8.696513 7.118925 8.399365 7.670513 9.246083 8.119115 10.089359 7.918723 8.374294 8.676179 9.624798 8.631111 9.244337 7.472371 9.405172 8.507459 9.450247
ENSG00000268179.1 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.592675 4.214794 4.214794 4.214794 4.214794 4.214794 4.617948 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794 4.214794
ENSG00000188976.6 11.902362 12.304945 11.853743 12.064551 12.023240 11.954736 11.958447 11.927504 11.742597 12.119004 12.506859 11.740085 11.980687 11.915595 11.776906 11.961296 11.830805 11.729006 12.163967 11.721126 11.820193 11.731037 11.712041 11.805282 12.116523 12.031198 11.486231 12.121185 11.656762 11.934707
ENSG00000187961.9 10.140389 9.322597 10.054278 10.292521 9.107302 10.918750 10.215716 10.339757 9.712242 9.652407 9.421770 9.513892 10.248443 9.978877 10.473181 9.362070 9.773537 9.660891 9.678311 9.882867 10.814435 10.553144 10.644630 11.053531 10.334869 10.366167 9.978149 10.612851 9.244333 10.492427
ENSG00000187583.6 6.617794 6.353808 6.233165 6.731442 6.332005 6.784361 6.811563 8.450058 6.562702 5.910636 9.003952 7.470931 6.654584 7.215401 7.916764 6.078556 5.667963 7.179398 6.805874 7.693399 7.190158 7.463662 8.767481 8.169820 7.852683 7.726469 6.481301 8.693321 6.621469 7.703963
ENSG00000187642.5 5.751995 5.982874 5.515591 5.902106 5.773039 6.469780 6.067788 7.137515 5.227814 5.585871 7.092890 6.507843 5.886722 5.895067 6.574413 5.862367 5.759898 6.312947 6.030621 7.141609 5.732047 6.765419 7.407450 6.818186 6.770470 6.561556 5.696141 7.790021 6.621469 6.893323
ENSG00000272512.1 8.727320 6.916677 7.662960 8.033241 6.732448 7.925028 8.191429 9.683747 6.198784 7.065633 7.599833 7.934076 6.995286 6.743534 6.449950 5.718411 8.301697 7.171995 7.951950 8.556456 6.304282 6.947420 7.407450 7.843228 7.745259 6.381393 6.582482 7.165045 7.220810 7.755266
ENSG00000188290.6 10.073420 8.631739 9.769660 8.996396 7.942420 8.807208 9.794673 11.004434 8.314542 9.508422 9.716700 9.907692 8.543464 8.429811 8.310611 8.134715 7.809751 8.977894 9.513028 10.042809 8.602789 8.003945 8.263490 8.493252 8.485566 8.542501 7.571171 8.887458 9.207421 8.529511
ENSG00000231702.2 4.583370 4.884380 4.573419 4.967416 4.528849 5.180660 4.602528 4.579396 4.541065 4.517678 4.973341 4.747693 5.030363 4.714860 4.693056 4.584448 5.014522 4.500329 4.562045 4.992841 5.609606 4.841814 4.814298 4.644325 4.497664 4.976788 5.724195 4.214794 4.662265 4.917581
ENSG00000224969.1 5.030297 4.884380 5.149630 4.594292 4.839259 6.136391 4.983472 5.772856 4.541065 4.737504 4.557144 5.381153 5.184272 4.714860 4.605886 4.736153 4.783859 4.617948 4.704710 4.992841 5.471410 5.162980 5.096622 4.953421 4.902267 4.756698 5.829953 4.887016 4.531836 5.274949
ENSG00000187608.5 9.616345 9.301786 10.267770 8.714652 9.216417 9.527266 9.156985 11.910178 9.620778 9.359310 12.506859 9.359134 9.261491 9.708506 8.410346 9.617685 8.182757 9.649132 9.614056 10.217268 9.863920 9.041635 9.710049 10.456218 10.226912 9.975825 8.452451 10.123323 9.918472 9.150608
ENSG00000188157.9 13.959853 14.144854 13.937649 14.220352 13.449465 14.317682 14.188301 14.026667 13.685630 13.698257 14.357766 14.583620 14.009483 14.375416 13.847822 13.530890 13.369722 13.673672 14.354181 13.640560 13.737991 13.887505 13.127731 14.146029 14.059080 13.644379 13.917224 13.419171 13.946929 12.994403
ENSG00000217801.5 7.988118 6.056828 7.967372 7.359877 7.060640 6.993441 7.653843 7.428339 7.597534 7.567963 6.804672 6.984845 6.561073 6.946606 7.713248 7.450377 6.762785 7.258354 7.066232 7.506683 8.929883 7.771228 8.452742 7.375516 8.402269 7.217270 7.903841 8.417606 7.306577 7.395891
ENSG00000273443.1 4.849785 4.690368 4.926649 4.214794 4.911636 5.030611 4.602528 5.660797 4.938308 4.642357 5.108342 4.592675 4.752726 4.569275 5.119880 5.032632 4.783859 5.060631 5.181171 4.214794 4.214794 4.214794 5.096622 5.064689 5.052926 4.214794 5.094431 4.692257 4.214794 4.857385
ENSG00000237330.2 4.849785 4.884380 4.832815 4.594292 5.280468 4.745450 5.351840 5.341949 5.067404 4.887204 4.894789 5.050448 5.030363 4.825743 4.888132 5.108383 5.456815 4.908645 4.904389 4.607337 4.955299 4.214794 4.595581 4.953421 5.006192 4.214794 5.039162 4.964708 4.662265 5.023712
ENSG00000131591.13 10.997126 9.852523 11.028397 10.681166 10.418025 9.330512 10.634780 10.808297 9.560062 10.441516 11.192135 10.900393 10.566012 10.791182 10.884472 10.281006 10.031381 10.340291 10.592252 10.461892 9.941196 10.153544 10.497205 10.478190 10.827542 9.789534 9.459638 10.904625 10.201611 10.193363
ENSG00000223823.1 5.105843 4.795954 4.573419 4.214794 5.436649 4.923613 4.602528 4.843009 4.777543 4.517678 4.214794 4.865642 4.526564 4.918542 4.990014 4.948202 5.332178 4.783115 4.904389 4.992841 5.651950 5.734031 6.423147 6.173014 5.006192 5.647941 5.146056 5.882674 4.983810 5.820224
ENSG00000207730.1 4.214794 4.214794 4.573419 4.749960 4.658067 4.626758 4.214794 4.579396 4.214794 4.517678 4.214794 4.214794 4.654854 4.569275 4.830379 4.214794 4.618479 4.500329 4.214794 4.607337 4.857817 4.214794 4.484441 4.214794 4.614196 4.599098 4.758617 4.214794 4.214794 4.214794
ENSG00000207607.1 4.214794 4.551833 4.214794 4.749960 4.528849 4.453179 5.071750 4.729065 4.675238 4.517678 4.214794 4.214794 4.526564 4.569275 4.214794 4.214794 4.214794 4.500329 4.214794 4.607337 4.588082 4.214794 4.751768 4.214794 4.214794 4.214794 4.214794 4.553178 4.214794 4.623207
ENSG00000198976.1 4.583370 4.214794 4.720677 4.594292 4.528849 4.689957 4.602528 4.214794 4.675238 4.214794 4.557144 4.592675 4.654854 5.139131 4.491760 4.214794 4.618479 4.783115 4.562045 4.214794 4.741251 4.578695 4.595581 4.519077 4.777859 4.599098 4.214794 4.553178 4.214794 4.214794
ENSG00000272141.1 8.808124 8.009729 8.703567 9.530722 8.793135 8.838023 9.754653 8.536203 7.922920 8.936251 7.903880 7.639547 8.910692 8.964372 8.721477 7.871802 7.595414 9.078811 9.153420 7.974671 9.308644 8.754331 8.500298 8.079437 8.485566 6.738845 8.264193 7.625958 6.701139 7.589785
ENSG00000205231.1 5.353700 5.031305 5.211794 5.267746 5.719093 4.961142 5.517299 5.164753 4.777543 5.526201 5.108342 4.747693 5.085074 5.258034 5.391061 5.241397 5.456815 5.512106 5.290460 5.302553 5.770050 5.441442 5.469901 5.248557 5.605042 4.599098 5.146056 5.669189 4.662265 5.902993
ENSG00000162571.9 6.501498 5.441463 6.083315 6.637786 6.643020 5.743257 6.003271 6.238251 5.906979 7.592965 6.610137 6.225126 5.428218 5.733035 6.244843 6.892518 5.667963 5.959933 6.004393 6.237375 6.546150 5.904090 6.022635 5.981516 6.164238 4.876580 5.543988 6.110417 5.290198 6.418497
ENSG00000186891.9 6.155724 5.308771 6.324081 5.936119 6.010673 7.398594 5.614395 7.516461 5.932074 5.747364 7.273031 9.653629 5.623356 6.010378 7.412321 6.333895 6.034146 7.524588 6.717040 7.823339 7.833769 7.540081 9.798114 8.889237 9.045670 8.622488 5.146056 9.270103 6.937318 8.314865
ENSG00000186827.6 8.914124 8.535834 8.612780 8.978002 8.212261 7.958018 7.197514 8.106085 8.069153 7.923147 8.986107 8.132476 6.868992 7.863099 8.994688 7.510437 7.114224 8.142454 8.895928 8.518772 8.612058 8.209808 10.422567 9.814825 9.374929 8.879997 7.301616 8.742637 7.584974 8.806009
ENSG00000078808.12 12.918945 13.509038 13.034743 13.081933 12.794648 13.001807 13.388135 12.949843 13.185524 13.130538 13.469364 13.166869 13.171025 13.296344 12.544545 12.955921 12.741671 12.755483 13.313576 13.248096 12.627137 12.680737 12.920238 13.038732 12.938230 13.744741 12.679552 12.868474 12.982206 12.489321
ENSG00000176022.3 9.923940 10.731669 10.158433 10.286562 10.388850 9.780927 10.192608 9.340393 10.488855 10.159008 10.587933 9.583044 10.325846 10.615810 8.937178 9.921188 9.918073 9.710766 10.765320 10.188478 9.367213 9.440061 10.012351 10.075434 10.105531 10.780236 9.206978 10.073340 10.206018 10.171973
ENSG00000184163.3 7.030845 6.275770 6.429433 6.405309 6.656163 6.333158 6.930927 6.539864 6.532073 6.315228 7.903880 7.112958 6.504546 6.804695 6.128548 5.718411 5.759898 6.132779 6.106112 7.225333 6.419766 6.415408 6.006814 5.960617 6.560014 6.451866 5.949943 6.361087 5.912243 6.457681
ENSG00000260179.1 5.923682 5.819770 4.926649 5.793764 6.669180 5.861399 6.003271 5.736728 5.620735 5.669571 6.527136 6.276732 6.178338 5.697683 5.475386 5.895734 7.790676 6.195712 5.922130 5.424230 6.094760 6.394166 5.590940 5.675795 5.629603 5.732980 5.724195 5.403722 5.099405 5.731096
ENSG00000160087.16 11.299443 11.763204 10.974835 11.514969 11.262978 12.017438 11.642545 11.465637 11.495751 11.390002 11.798292 11.607750 11.613575 11.537224 11.220412 11.046994 11.108909 11.550627 11.613289 11.191444 11.533680 11.426903 11.566141 11.594404 11.367184 11.825302 10.963335 11.739981 10.969473 11.335218
ENSG00000230415.1 7.084670 6.353808 7.252799 6.618248 6.547225 6.503938 6.963210 6.500789 6.810882 7.118726 6.033185 6.590028 6.868992 7.135374 6.244843 6.623576 6.258000 6.902488 6.554642 6.468781 7.743424 6.664417 7.478374 7.269496 7.467468 6.828155 7.650691 6.808033 6.332286 6.470487
ENSG00000162572.15 10.354297 8.547686 10.464334 9.621143 9.309825 10.464458 10.074781 9.745195 9.877945 10.194848 8.296596 9.316249 9.438579 10.189855 9.835052 9.412283 8.672363 9.786663 9.719609 10.203791 11.007278 9.920507 10.749221 10.354807 11.020445 9.641704 10.435820 9.934948 9.419712 9.689026
ENSG00000131584.14 12.918945 11.886645 12.752472 12.197512 12.094914 12.266293 12.349016 12.761294 11.791162 12.490631 11.578036 12.025031 12.741323 12.529324 11.883764 11.938950 11.875317 11.839713 12.533939 12.562677 12.095431 12.273002 12.413510 12.877694 12.579799 12.188177 11.195673 12.560441 11.873048 11.979550
ENSG00000169972.7 9.072912 8.944036 8.781400 9.142266 8.925040 9.015895 8.916005 8.802544 8.829971 9.207078 8.773635 8.834851 9.211475 9.231288 9.106841 8.866132 8.405283 9.295550 9.493676 8.582780 8.531296 8.647071 8.928562 9.197355 8.807817 9.374017 8.146303 9.110355 8.493073 9.219365
ENSG00000127054.14 13.357041 12.780772 13.221400 13.146067 12.734393 13.242218 13.280150 13.509800 12.726490 13.231455 13.105793 13.097282 13.109403 13.178912 13.544050 12.853079 12.558170 13.216639 12.966861 13.016781 13.367220 13.298536 13.322171 13.348507 13.337559 12.815013 13.279594 13.223165 12.500763 12.951666
ENSG00000240731.1 8.672251 8.032461 8.346775 8.646360 8.464753 8.642372 8.631291 8.821711 8.390552 8.711171 8.315814 8.680927 8.434848 8.784084 8.981015 8.515368 8.564721 8.714788 8.669103 8.154321 8.884743 8.664103 8.650663 8.686051 8.402269 8.057786 9.043655 8.207521 7.671081 8.569980
ENSG00000224051.2 10.577825 10.749697 10.855072 10.630313 10.482703 10.679553 10.644543 10.197557 10.688847 10.626079 10.549004 10.554491 10.732511 10.916741 10.672653 10.402282 10.750467 10.263558 10.533482 10.763433 10.464788 10.400490 10.679389 10.932668 11.113387 11.230515 10.140555 11.147193 10.498689 10.952330
ENSG00000169962.4 7.326429 7.396209 7.088471 7.008936 6.707495 8.537515 7.573624 8.048499 7.183899 6.981978 6.911896 7.887720 6.912390 7.280528 7.557559 6.797780 6.422891 7.677734 7.158050 7.238813 7.955725 8.332244 9.966168 9.288243 8.247147 9.115681 7.162931 9.623731 7.081403 8.517736
ENSG00000107404.13 12.694940 12.145840 12.648246 12.610302 12.054737 13.094235 12.605728 12.744096 12.228568 12.434147 12.575508 12.895446 12.659050 12.691688 12.605725 12.175991 12.150730 12.567089 12.691709 12.432273 12.292727 12.456741 12.232075 12.750336 12.558891 12.306900 12.201005 12.455223 12.083116 12.291846
ENSG00000162576.12 13.459072 13.085552 13.361259 13.751539 12.882165 12.345760 13.074601 13.310548 13.387648 13.677603 12.574515 13.306054 13.258852 12.865542 12.500617 13.606845 12.396461 12.912429 13.306820 13.958457 12.990396 12.598031 12.392367 13.086956 12.800776 12.884935 12.529974 12.282925 13.098731 11.143601
ENSG00000175756.9 11.791673 12.151016 11.937577 11.679180 11.704129 11.776678 11.925296 11.770930 11.562331 11.636238 12.406304 11.765261 11.879984 12.012019 11.007923 11.357837 11.289293 11.348654 12.234272 11.450112 11.432906 11.397986 11.603118 11.624645 11.717268 12.076618 10.888092 11.875791 11.656762 11.503225
ENSG00000223663.2 4.849785 5.355075 5.008714 4.967416 4.911636 5.259146 5.223084 5.096476 4.214794 4.737504 5.043889 4.592675 4.971263 4.825743 4.693056 4.851623 5.014522 4.617948 5.181171 4.214794 4.214794 5.020161 4.870592 4.214794 4.614196 4.214794 5.094431 4.798252 4.531836 4.790480


Tabla 6: tabla que muestra los 100 primeros genes de la matriz cruda filtrada y normalizada mediante la transformación vst.


Control de calidad


Ahora que ya disponemos de unos datos con menor sesgo y que están normalizados, ya podemos proseguir con el control de calidad. Tal y como hemos comentado con anterioridad, este control gira principalmente entorno a un análisis gráfico basado la contrucción de un boxplot, un PCA plot y un dendrograma. A continuación se presentan e interpretan conjuntamente los resutados de estas pruebas gráficas. En la Figura 1 se muestran el boxplot y el PCA plot esmentados. En primer lugar, observamos que, tal y como se esperaba, la distribución de pseudocounts inter e intragrupales del boxplot son significativamente homogenéos (Figura 1.A).


Adicionalmente, si nos fijamos en el PCA plot (Figura 1.B), podemos extraer bastante información. Por un lado, identificamos que las dos componentes principales que explican mejor la varianza de las muestras explican un 25.7% (PC1) y un 10.8 % (PC2) de esta. Adicionalmente vemos que -aunque no es perfecta- existe cierta homogeneidad entre las muestras de un mismo grupo. Las muestras del grupo NIT presentan valores negativos y parecidos entre sí para la PC1 mientras que los valores para la PC2 son mucho más variables. Las muestras del grupo SFI presentan valores cercanos a 0 y bastante parecidos entre sí para la PC1 mientras que -análogamente al grupo NIT- los valores para la PC2 difieren significativamente. Finalmente -a excepción de dos muestras (ELI-7 y ELI-9)- todas las muestras del grupo ELI presentan valores positivos y significativamente elevados para la PC1. En cuanto a la PC2, observamos una dispersión parecida a la de los otros grupos pero no tan acentuada. En síntesis, podríamos concluir que -aunque no es muy clara- observamos una segmentación de las muestras por grupos. Los grupos NIT y SFI son bastante parecidos entre ellos, mientras que el grupo ELI es el que está más alejado del resto. Si así nos conviene, podríamos considerar las muestras ELI-7 y ELI-9 como problemáticas y eliminarlas.



Figura 1: boxplot de los pseudocounts (A). PCA plot de los pseudocounts (B).


En la Figura 2 se muestra el dendrograma. Primeramente, podemos identificar que la división óptima implica la construcción de únicamente dos clústers. El primero incluye todas las muestras NIT, 7/10 muestras SFI y 2/10 muestras ELI. En cambio, el segundo no incluye ninguna muestra NIT, e incluye 3/10 muestras SFI y 8/10 muestras ELI. Estos resultados sustentan lo observado en el PCA plot. Esto es -básicamente- que los grupos NIT y SFI son significativamente parecidos entre ellos y -a su vez- considerablemente diferentes al grupo EFI.



Figura 2: dendrograma resultante del análisis de clustering jerarárquico de las 30 muestras.


Selección de genes (DEG)


Una vez los datos han pasado el control de calidad y se han establecido las comparaciones, identificaremos que genes estan diferencialmente expresados en cada una de ellas. A continuación se muestra, para cada una de las 3 comparaciones, una topTable con los 75 genes que parecen presentar una mayor expresión diferencial. Estos son -de los genes que presentan un p-valor ajustado < 0.1- aquellos que presentan valores absolutos más grandes para el log2FC. Adicionalmente, también se muestra un un resumen que contiene -entre otros- el número y el porcentaje de genes up-regulated y down-regulated.


NIT vs SFI:


En primer lugar, vamos a analizar los resultados obtenidos para la comparación NIT vs SFI. Tal y como podemos observar en la Tabla 7, la aplicación de pequeñas infilitraciones focales en el tejido tiroideo (SFI) desencadena una respuesta que implica -almenos- la expresión diferencial de 330 (0.71%) genes respecto a la condición normal (NIT). De estos genes, 51 (0.11%) están sobrexpresados y 279 (0.6%) infraexpresados.


baseMean log2FoldChange lfcSE stat pvalue padj symbol entrez
ENSG00000105369 1948.87 -4.90 0.80 -6.14 8.4e-10 4.6e-07 CD79A 973
ENSG00000170476 1628.40 -4.15 0.74 -5.61 2.0e-08 7.4e-06 MZB1 51237
ENSG00000156738 5112.78 -4.50 0.81 -5.54 3.0e-08 1.0e-05 MS4A1 931
ENSG00000181847 505.03 -3.02 0.55 -5.52 3.3e-08 1.1e-05 TIGIT 201633
ENSG00000156234 561.78 -4.44 0.83 -5.32 1.0e-07 3.0e-05 CXCL13 10563
ENSG00000110777 1986.24 -3.24 0.62 -5.19 2.1e-07 5.7e-05 POU2AF1 5450
ENSG00000226777 416.84 -3.91 0.76 -5.13 2.8e-07 7.5e-05 FAM30A 9834
ENSG00000132465 7603.68 -3.78 0.74 -5.09 3.6e-07 9.1e-05 JCHAIN 3512
ENSG00000129204 428.14 2.15 0.44 4.89 1.0e-06 2.4e-04 USP6 9098
ENSG00000187862 90.87 -2.94 0.60 -4.86 1.2e-06 2.7e-04 TTC24 164118
ENSG00000235304 36.49 -5.87 1.24 -4.74 2.1e-06 4.8e-04 LINC01281 286442
ENSG00000048462 108.47 -2.52 0.54 -4.68 2.8e-06 6.3e-04 TNFRSF17 608
ENSG00000163534 804.39 -3.53 0.76 -4.63 3.7e-06 8.2e-04 FCRL1 115350
ENSG00000160856 926.56 -3.03 0.66 -4.57 4.8e-06 1.0e-03 FCRL3 115352
ENSG00000177455 1184.57 -3.51 0.77 -4.56 5.1e-06 1.1e-03 CD19 930
ENSG00000254709 101.05 -4.44 0.98 -4.54 5.6e-06 1.1e-03 IGLL5 100423062
ENSG00000122188 236.81 -2.19 0.49 -4.51 6.6e-06 1.3e-03 LAX1 54900
ENSG00000235532 73.30 -4.17 0.93 -4.51 6.6e-06 1.3e-03 LINC00402 100507612
ENSG00000026751 787.52 -2.25 0.50 -4.49 7.2e-06 1.4e-03 SLAMF7 57823
ENSG00000197057 177.97 -2.42 0.54 -4.45 8.5e-06 1.7e-03 DTHD1 401124
ENSG00000086967 152.58 -3.35 0.76 -4.38 1.2e-05 2.3e-03 MYBPC2 4606
ENSG00000136573 911.22 -2.90 0.66 -4.38 1.2e-05 2.3e-03 BLK 640
ENSG00000083454 913.26 -2.62 0.60 -4.37 1.2e-05 2.3e-03 P2RX5 5026
ENSG00000140465 120.99 -3.68 0.84 -4.36 1.3e-05 2.4e-03 CYP1A1 1543
ENSG00000089012 258.32 -2.24 0.51 -4.36 1.3e-05 2.4e-03 SIRPG 55423
ENSG00000121895 207.04 -2.60 0.60 -4.32 1.5e-05 2.8e-03 TMEM156 80008
ENSG00000196092 398.98 -3.43 0.80 -4.31 1.6e-05 2.8e-03 PAX5 5079
ENSG00000159958 162.27 -3.54 0.82 -4.30 1.7e-05 3.0e-03 TNFRSF13C 115650
ENSG00000122224 497.02 -2.47 0.58 -4.28 1.8e-05 3.2e-03 LY9 4063
ENSG00000143297 1671.07 -3.42 0.80 -4.27 2.0e-05 3.4e-03 FCRL5 83416
ENSG00000113088 259.07 -2.48 0.58 -4.26 2.0e-05 3.4e-03 GZMK 3003
ENSG00000116748 50.56 -2.34 0.55 -4.24 2.2e-05 3.7e-03 AMPD1 270
ENSG00000198576 199.58 2.48 0.59 4.18 2.9e-05 4.7e-03 ARC 23237
ENSG00000086159 5.21 2.72 0.66 4.13 3.6e-05 5.6e-03 AQP6 363
ENSG00000138755 1841.40 -2.50 0.61 -4.13 3.6e-05 5.7e-03 CXCL9 4283
ENSG00000168081 68.51 -2.60 0.64 -4.07 4.7e-05 7.1e-03 PNOC 5368
ENSG00000092345 4.26 4.26 1.07 3.97 7.0e-05 1.0e-02 DAZL 1618
ENSG00000257242 72.86 -2.07 0.52 -3.96 7.5e-05 1.1e-02 LINC01619 256021
ENSG00000240505 194.19 -4.25 1.08 -3.92 8.7e-05 1.2e-02 TNFRSF13B 23495
ENSG00000131096 18.83 2.26 0.58 3.91 9.2e-05 1.3e-02 PYY 5697
ENSG00000165076 9.47 2.28 0.59 3.89 1.0e-04 1.4e-02 PRSS37 136242
ENSG00000225362 35.25 2.07 0.54 3.85 1.2e-04 1.6e-02 CT62 196993
ENSG00000183918 263.35 -2.09 0.54 -3.85 1.2e-04 1.6e-02 SH2D1A 4068
ENSG00000255760 66.56 -4.18 1.09 -3.84 1.2e-04 1.6e-02 LINC02422 105369723
ENSG00000269404 416.45 -2.45 0.64 -3.82 1.3e-04 1.8e-02 SPIB 6689
ENSG00000171903 519.64 -2.20 0.58 -3.80 1.5e-04 1.9e-02 CYP4F11 57834
ENSG00000234184 32.14 -4.48 1.18 -3.79 1.5e-04 2.0e-02 LINC01781 101927412
ENSG00000178562 397.88 -2.24 0.60 -3.76 1.7e-04 2.1e-02 CD28 940
ENSG00000136931 7.75 2.98 0.80 3.73 1.9e-04 2.4e-02 NR5A1 2516
ENSG00000158477 22.99 -3.95 1.07 -3.70 2.2e-04 2.7e-02 CD1A 909
ENSG00000137673 23.60 -2.89 0.78 -3.69 2.2e-04 2.7e-02 MMP7 4316
ENSG00000135248 11.80 2.57 0.70 3.68 2.3e-04 2.8e-02 FAM71F1 84691
ENSG00000102970 22.77 -3.33 0.91 -3.65 2.6e-04 3.1e-02 CCL17 6361
ENSG00000049249 22.64 -2.35 0.65 -3.64 2.8e-04 3.3e-02 TNFRSF9 3604
ENSG00000249923 7.03 2.03 0.56 3.62 3.0e-04 3.5e-02 LOC284865 284865
ENSG00000255733 55.44 -2.68 0.75 -3.55 3.9e-04 4.4e-02 IFNG-AS1 100885789
ENSG00000185972 11.61 2.40 0.68 3.52 4.2e-04 4.7e-02 CCIN 881
ENSG00000163599 420.70 -2.19 0.63 -3.49 4.9e-04 5.4e-02 CTLA4 1493
ENSG00000254211 7.61 -2.54 0.73 -3.47 5.2e-04 5.6e-02 LINC01485 101928154
ENSG00000078589 193.96 -2.04 0.59 -3.47 5.3e-04 5.7e-02 P2RY10 27334
ENSG00000234572 10.73 -3.91 1.14 -3.44 5.8e-04 6.0e-02 LINC01800 101927438
ENSG00000163508 258.50 -2.01 0.58 -3.44 5.9e-04 6.1e-02 EOMES 8320
ENSG00000169245 334.62 -2.56 0.75 -3.43 6.1e-04 6.3e-02 CXCL10 3627
ENSG00000159556 10.15 -2.90 0.85 -3.40 6.7e-04 6.8e-02 ISL2 64843
ENSG00000256574 14.46 -3.47 1.02 -3.39 6.9e-04 6.9e-02 OR13A1 79290
ENSG00000231439 54.87 2.28 0.68 3.34 8.3e-04 8.0e-02 WASIR2 100132169
ENSG00000144460 7.44 -3.25 0.98 -3.33 8.6e-04 8.2e-02 NYAP2 57624
ENSG00000100721 310.88 -3.08 0.93 -3.30 9.6e-04 8.9e-02 TCL1A 8115
ENSG00000204595 1.65 3.59 1.09 3.29 9.9e-04 9.2e-02 DPRX 503834
ENSG00000185155 28.43 -2.44 0.75 -3.27 1.1e-03 9.9e-02 MIXL1 83881



out of 46777 with nonzero total read count
adjusted p-value < 0.1
LFC > 0 (up)       : 51, 0.11%
LFC < 0 (down)     : 279, 0.6%
outliers [1]       : 0, 0%
low counts [2]     : 17235, 37%
(mean count < 2)
[1] see 'cooksCutoff' argument of ?results
[2] see 'independentFiltering' argument of ?results


Tabla 7: toptable y tabla resumen que contienen tanto la lista como el resumen de los genes que presentan evidencia de estar diferencialmente expresados entre las condiciones NIT y SFI.


NIT vs ELI:


A continuación, comentaremos el output obtenido en la comparación NIT vs ELI. Si nos fijamos en la Tabla 8, la aplicación de infilitraciones extensivas en el tejido tiroideo (ELI) desencadena una respuesta que implica -por lo menos- la expresión diferencial de 3814 (8.1%) genes respecto a la condición normal (NIT). De estos genes, un 2% están sobrexpresados y un 6.1% infraexpresados.


baseMean log2FoldChange lfcSE stat pvalue padj symbol entrez
ENSG00000048462 108.47 -6.00 0.53 -11.28 1.6e-29 2.6e-25 TNFRSF17 608
ENSG00000156234 561.78 -9.23 0.83 -11.09 1.4e-28 1.6e-24 CXCL13 10563
ENSG00000160856 926.56 -6.91 0.66 -10.46 1.4e-25 4.9e-22 FCRL3 115352
ENSG00000163534 804.39 -7.87 0.76 -10.33 5.2e-25 1.5e-21 FCRL1 115350
ENSG00000196092 398.98 -8.19 0.79 -10.33 5.1e-25 1.5e-21 PAX5 5079
ENSG00000271856 177.49 -6.05 0.59 -10.27 9.4e-25 2.5e-21 LINC01215 101929623
ENSG00000269404 416.45 -6.52 0.64 -10.18 2.4e-24 5.4e-21 SPIB 6689
ENSG00000168081 68.51 -6.38 0.63 -10.16 2.9e-24 6.1e-21 PNOC 5368
ENSG00000177455 1184.57 -7.79 0.77 -10.13 3.9e-24 7.9e-21 CD19 930
ENSG00000100721 310.88 -9.30 0.92 -10.07 7.2e-24 1.3e-20 TCL1A 8115
ENSG00000083454 913.26 -6.02 0.60 -10.08 7.0e-24 1.3e-20 P2RX5 5026
ENSG00000167483 842.93 -6.36 0.64 -10.00 1.6e-23 2.6e-20 NIBAN3 199786
ENSG00000089012 258.32 -5.10 0.51 -9.98 1.8e-23 2.8e-20 SIRPG 55423
ENSG00000105369 1948.87 -7.92 0.80 -9.93 3.2e-23 4.6e-20 CD79A 973
ENSG00000122188 236.81 -4.79 0.48 -9.91 3.7e-23 5.0e-20 LAX1 54900
ENSG00000117322 963.92 -7.51 0.76 -9.83 8.1e-23 1.0e-19 CR2 1380
ENSG00000187862 90.87 -5.81 0.60 -9.71 2.8e-22 3.0e-19 TTC24 164118
ENSG00000136573 911.22 -6.39 0.66 -9.65 5.0e-22 4.8e-19 BLK 640
ENSG00000181847 505.03 -5.24 0.55 -9.59 9.2e-22 8.7e-19 TIGIT 201633
ENSG00000188404 1115.88 -4.32 0.45 -9.56 1.2e-21 1.1e-18 SELL 6402
ENSG00000226777 416.84 -7.22 0.76 -9.51 1.9e-21 1.7e-18 FAM30A 9834
ENSG00000007312 900.45 -4.23 0.44 -9.50 2.1e-21 1.8e-18 CD79B 974
ENSG00000156738 5112.78 -7.69 0.81 -9.48 2.6e-21 2.1e-18 MS4A1 931
ENSG00000245164 881.80 -4.87 0.51 -9.47 2.7e-21 2.2e-18 LINC00861 100130231
ENSG00000162894 1340.03 -4.33 0.46 -9.46 3.1e-21 2.4e-18 FCMR 9214
ENSG00000227507 832.23 -5.23 0.56 -9.40 5.4e-21 4.2e-18 LTB 4050
ENSG00000110777 1986.24 -5.83 0.62 -9.35 8.7e-21 6.5e-18 POU2AF1 5450
ENSG00000009790 1329.73 -4.06 0.44 -9.24 2.6e-20 1.8e-17 TRAF3IP3 80342
ENSG00000241106 566.38 -4.42 0.48 -9.24 2.5e-20 1.8e-17 HLA-DOB 3112
ENSG00000170476 1628.40 -6.82 0.74 -9.23 2.7e-20 1.9e-17 MZB1 51237
ENSG00000104921 387.71 -5.87 0.64 -9.21 3.4e-20 2.3e-17 FCER2 2208
ENSG00000104894 2626.16 -4.10 0.45 -9.15 5.5e-20 3.5e-17 CD37 951
ENSG00000247774 396.41 -3.43 0.38 -8.99 2.4e-19 1.4e-16 PCED1B-AS1 100233209
ENSG00000137265 1005.07 -4.93 0.55 -8.96 3.1e-19 1.7e-16 IRF4 3662
ENSG00000233355 329.66 -5.42 0.61 -8.95 3.5e-19 1.9e-16 CHRM3-AS2 100506915
ENSG00000026751 787.52 -4.47 0.50 -8.92 4.6e-19 2.3e-16 SLAMF7 57823
ENSG00000247982 1586.16 -3.80 0.43 -8.91 5.0e-19 2.5e-16 LINC00926 283663
ENSG00000121895 207.04 -5.31 0.60 -8.85 8.4e-19 4.1e-16 TMEM156 80008
ENSG00000173200 1754.14 -4.39 0.50 -8.80 1.4e-18 6.5e-16 PARP15 165631
ENSG00000170006 359.25 -3.19 0.36 -8.78 1.6e-18 7.1e-16 TMEM154 201799
ENSG00000169442 936.51 -3.97 0.45 -8.75 2.2e-18 9.4e-16 CD52 1043
ENSG00000113088 259.07 -5.05 0.58 -8.70 3.5e-18 1.4e-15 GZMK 3003
ENSG00000162739 801.36 -4.42 0.51 -8.67 4.2e-18 1.7e-15 SLAMF6 114836
ENSG00000159618 310.73 -3.66 0.42 -8.67 4.3e-18 1.7e-15 ADGRG5 221188
ENSG00000128218 146.23 -4.66 0.54 -8.66 4.7e-18 1.8e-15 VPREB3 29802
ENSG00000111913 1438.34 -3.13 0.36 -8.61 7.2e-18 2.8e-15 RIPOR2 9750
ENSG00000137078 178.61 -3.80 0.45 -8.52 1.7e-17 6.0e-15 SIT1 27240
ENSG00000132185 270.99 -7.08 0.84 -8.45 3.0e-17 1.0e-14 FCRLA 84824
ENSG00000205744 1692.35 -2.85 0.34 -8.42 3.9e-17 1.3e-14 DENND1C 79958
ENSG00000198796 140.51 -5.92 0.71 -8.36 6.5e-17 2.1e-14 ALPK2 115701
ENSG00000101057 303.27 -4.65 0.56 -8.35 6.7e-17 2.2e-14 MYBL2 4605
ENSG00000159753 1359.38 -4.25 0.51 -8.33 8.3e-17 2.7e-14 CARMIL2 146206
ENSG00000124256 416.94 -4.50 0.54 -8.31 9.4e-17 3.0e-14 ZBP1 81030
ENSG00000185905 248.61 -4.02 0.48 -8.31 9.9e-17 3.1e-14 C16orf54 283897
ENSG00000174123 468.17 -6.05 0.73 -8.26 1.5e-16 4.5e-14 TLR10 81793
ENSG00000167895 4332.53 -4.08 0.49 -8.26 1.5e-16 4.6e-14 TMC8 147138
ENSG00000178199 404.14 -3.94 0.48 -8.23 1.8e-16 5.5e-14 ZC3H12D 340152
ENSG00000079263 565.58 -4.12 0.50 -8.22 2.0e-16 6.0e-14 SP140 11262
ENSG00000162892 285.12 -4.11 0.50 -8.21 2.1e-16 6.2e-14 IL24 11009
ENSG00000110934 857.69 -2.98 0.36 -8.21 2.3e-16 6.6e-14 BIN2 51411
ENSG00000198286 937.24 -3.64 0.44 -8.19 2.5e-16 7.1e-14 CARD11 84433
ENSG00000143297 1671.07 -6.54 0.80 -8.17 3.0e-16 8.2e-14 FCRL5 83416
ENSG00000158517 297.79 -3.28 0.40 -8.17 3.1e-16 8.3e-14 NCF1 653361
ENSG00000102879 3973.52 -3.46 0.42 -8.15 3.5e-16 9.4e-14 CORO1A 11151
ENSG00000186265 173.55 -4.33 0.53 -8.12 4.6e-16 1.2e-13 BTLA 151888
ENSG00000143851 1011.88 -3.71 0.46 -8.11 5.2e-16 1.3e-13 PTPN7 5778
ENSG00000132704 642.49 -7.26 0.90 -8.10 5.5e-16 1.4e-13 FCRL2 79368
ENSG00000147168 1509.05 -3.66 0.45 -8.10 5.6e-16 1.4e-13 IL2RG 3561
ENSG00000185862 1503.56 -3.67 0.45 -8.09 5.9e-16 1.5e-13 EVI2B 2124
ENSG00000072858 325.17 -3.09 0.38 -8.08 6.3e-16 1.5e-13 SIDT1 54847
ENSG00000175857 189.92 -4.34 0.54 -8.08 6.4e-16 1.6e-13 GAPT 202309
ENSG00000168421 538.54 -3.84 0.48 -8.06 7.6e-16 1.8e-13 RHOH 399
ENSG00000104783 669.15 -4.01 0.50 -8.06 7.6e-16 1.8e-13 KCNN4 3783
ENSG00000165178 161.62 -3.41 0.42 -8.04 9.1e-16 2.1e-13 NCF1C 654817
ENSG00000122122 1299.62 -3.44 0.43 -8.04 9.2e-16 2.2e-13 SASH3 54440
ENSG00000072818 2718.75 -3.38 0.42 -8.02 1.1e-15 2.5e-13 ACAP1 9744
ENSG00000167286 330.56 -3.40 0.43 -8.00 1.3e-15 3.0e-13 CD3D 915
ENSG00000163518 29.59 -8.07 1.01 -7.99 1.4e-15 3.2e-13 FCRL4 83417
ENSG00000117091 569.45 -3.62 0.45 -7.98 1.4e-15 3.2e-13 CD48 962
ENSG00000123329 2274.26 -3.45 0.43 -7.98 1.5e-15 3.4e-13 ARHGAP9 64333
ENSG00000167077 426.96 -3.39 0.43 -7.97 1.6e-15 3.5e-13 MEI1 150365
ENSG00000112303 251.58 -3.28 0.41 -7.95 1.8e-15 4.0e-13 VNN2 8875
ENSG00000128340 714.24 -3.42 0.43 -7.92 2.4e-15 5.2e-13 RAC2 5880
ENSG00000104814 1148.80 -3.57 0.45 -7.91 2.7e-15 5.7e-13 MAP4K1 11184
ENSG00000224137 31.18 -6.81 0.86 -7.90 2.8e-15 5.9e-13 LINC01857 102724714
ENSG00000182866 1148.45 -3.58 0.45 -7.88 3.3e-15 6.8e-13 LCK 3932
ENSG00000254709 101.05 -7.65 0.97 -7.86 3.9e-15 8.0e-13 IGLL5 100423062
ENSG00000010671 576.56 -3.43 0.44 -7.83 5.1e-15 1.0e-12 BTK 695
ENSG00000185155 28.43 -5.71 0.73 -7.81 5.8e-15 1.2e-12 MIXL1 83881
ENSG00000172794 424.15 -3.29 0.42 -7.80 6.0e-15 1.2e-12 RAB37 326624
ENSG00000159958 162.27 -6.40 0.82 -7.80 6.1e-15 1.2e-12 TNFRSF13C 115650
ENSG00000174130 414.53 -3.52 0.45 -7.80 6.4e-15 1.2e-12 TLR6 10333
ENSG00000197057 177.97 -4.21 0.54 -7.76 8.7e-15 1.6e-12 DTHD1 401124
ENSG00000198851 1165.38 -3.33 0.43 -7.73 1.1e-14 2.0e-12 CD3E 916
ENSG00000234184 32.14 -8.97 1.16 -7.72 1.1e-14 2.1e-12 LINC01781 101927412
ENSG00000070190 337.18 -3.99 0.52 -7.70 1.4e-14 2.5e-12 DAPP1 27071
ENSG00000167208 325.76 -3.36 0.44 -7.68 1.6e-14 2.9e-12 SNX20 124460
ENSG00000185811 1556.16 -3.30 0.43 -7.67 1.8e-14 3.1e-12 IKZF1 10320
ENSG00000255733 55.44 -5.72 0.75 -7.66 1.9e-14 3.3e-12 IFNG-AS1 100885789
ENSG00000082293 54.95 -4.33 0.57 -7.64 2.2e-14 3.9e-12 COL19A1 1310
ENSG00000081059 1759.92 -2.44 0.32 -7.63 2.4e-14 4.2e-12 TCF7 6932
ENSG00000136490 2097.08 -3.23 0.42 -7.61 2.7e-14 4.7e-12 LIMD2 80774
ENSG00000145088 149.10 -2.61 0.34 -7.61 2.8e-14 4.9e-12 EAF2 55840
ENSG00000259772 161.19 -3.62 0.48 -7.60 3.0e-14 5.2e-12 LOC283710 283710
ENSG00000132465 7603.68 -5.64 0.74 -7.59 3.2e-14 5.4e-12 JCHAIN 3512
ENSG00000161929 216.32 -3.29 0.43 -7.58 3.5e-14 6.0e-12 SCIMP 388325
ENSG00000182487 188.13 -3.25 0.43 -7.57 3.6e-14 6.0e-12 NCF1B 654816
ENSG00000163599 420.70 -4.74 0.63 -7.57 3.9e-14 6.4e-12 CTLA4 1493
ENSG00000188389 430.46 -3.49 0.46 -7.56 4.2e-14 6.9e-12 PDCD1 5133
ENSG00000076662 1215.60 -2.35 0.31 -7.54 4.7e-14 7.7e-12 ICAM3 3385
ENSG00000220008 92.53 -3.75 0.50 -7.54 4.9e-14 7.9e-12 LINGO3 645191
ENSG00000143119 2802.55 -3.32 0.44 -7.51 5.9e-14 9.5e-12 CD53 963
ENSG00000227039 991.70 -4.34 0.58 -7.50 6.5e-14 1.0e-11 ITGB2-AS1 100505746
ENSG00000166501 1072.68 -3.40 0.45 -7.49 6.7e-14 1.1e-11 PRKCB 5579
ENSG00000213654 1540.42 -2.31 0.31 -7.49 6.8e-14 1.1e-11 GPSM3 63940
ENSG00000005844 2587.91 -3.55 0.48 -7.47 7.9e-14 1.2e-11 ITGAL 3683
ENSG00000188452 404.31 -2.86 0.38 -7.46 8.8e-14 1.4e-11 CERKL 375298
ENSG00000172578 1244.95 -3.61 0.48 -7.45 9.0e-14 1.4e-11 KLHL6 89857
ENSG00000234883 214.70 -3.79 0.51 -7.45 9.1e-14 1.4e-11 MIR155HG 114614
ENSG00000035720 167.93 -5.21 0.70 -7.45 9.2e-14 1.4e-11 STAP1 26228
ENSG00000013725 901.29 -3.68 0.49 -7.45 9.6e-14 1.4e-11 CD6 923
ENSG00000028277 1067.70 -3.54 0.47 -7.45 9.6e-14 1.4e-11 POU2F2 5452
ENSG00000109943 74.47 -3.55 0.48 -7.44 1.0e-13 1.5e-11 CRTAM 56253
ENSG00000235532 73.30 -6.84 0.92 -7.42 1.2e-13 1.7e-11 LINC00402 100507612
ENSG00000163568 230.72 -4.66 0.63 -7.39 1.4e-13 2.1e-11 AIM2 9447
ENSG00000238121 201.28 -3.53 0.48 -7.39 1.4e-13 2.1e-11 LINC00426 100188949
ENSG00000235304 36.49 -9.06 1.23 -7.36 1.8e-13 2.6e-11 LINC01281 286442
ENSG00000129173 41.16 -3.68 0.50 -7.36 1.8e-13 2.7e-11 E2F8 79733
ENSG00000068831 3363.16 -2.89 0.39 -7.36 1.9e-13 2.7e-11 RASGRP2 10235
ENSG00000110665 452.18 -3.61 0.49 -7.35 1.9e-13 2.8e-11 C11orf21 29125
ENSG00000015285 904.07 -2.79 0.38 -7.34 2.1e-13 2.9e-11 WAS 7454
ENSG00000078589 193.96 -4.30 0.59 -7.33 2.4e-13 3.3e-11 P2RY10 27334
ENSG00000134061 253.71 -4.35 0.59 -7.32 2.5e-13 3.5e-11 CD180 4064
ENSG00000188820 94.81 -2.87 0.39 -7.31 2.6e-13 3.7e-11 CALHM6 441168
ENSG00000102096 2309.09 -3.39 0.46 -7.31 2.7e-13 3.7e-11 PIM2 11040
ENSG00000115085 1795.87 -3.35 0.46 -7.29 3.2e-13 4.4e-11 ZAP70 7535
ENSG00000168071 3370.62 -3.11 0.43 -7.26 3.8e-13 5.1e-11 CCDC88B 283234
ENSG00000257242 72.86 -3.77 0.52 -7.25 4.1e-13 5.5e-11 LINC01619 256021
ENSG00000147138 203.08 -3.81 0.53 -7.23 4.7e-13 6.2e-11 GPR174 84636
ENSG00000130475 470.50 -3.52 0.49 -7.22 5.2e-13 6.8e-11 FCHO1 23149
ENSG00000122224 497.02 -4.15 0.57 -7.21 5.4e-13 7.1e-11 LY9 4063
ENSG00000100385 858.70 -3.03 0.42 -7.21 5.5e-13 7.1e-11 IL2RB 3560
ENSG00000170054 54.55 -9.79 1.36 -7.19 6.3e-13 8.1e-11 SERPINA9 327657
ENSG00000270164 213.52 -3.04 0.42 -7.19 6.4e-13 8.1e-11 LINC01480 101927931
ENSG00000160185 255.17 -3.47 0.48 -7.19 6.6e-13 8.3e-11 UBASH3A 53347
ENSG00000204475 66.12 -4.24 0.59 -7.19 6.7e-13 8.4e-11 NCR3 259197
ENSG00000226979 58.88 -3.63 0.50 -7.18 6.8e-13 8.5e-11 LTA 4049
ENSG00000130487 114.08 -4.20 0.58 -7.18 7.0e-13 8.7e-11 KLHDC7B 113730
ENSG00000187912 94.10 -5.82 0.81 -7.17 7.3e-13 9.1e-11 CLEC17A 388512
ENSG00000153283 793.61 -2.36 0.33 -7.16 7.8e-13 9.6e-11 CD96 10225
ENSG00000112486 201.36 -2.52 0.35 -7.14 9.4e-13 1.2e-10 CCR6 1235
ENSG00000183918 263.35 -3.87 0.54 -7.12 1.1e-12 1.3e-10 SH2D1A 4068
ENSG00000175643 135.27 -2.51 0.35 -7.11 1.2e-12 1.4e-10 RMI2 116028
ENSG00000146285 276.03 -3.43 0.48 -7.10 1.2e-12 1.5e-10 SCML4 256380
ENSG00000105122 2533.98 -2.87 0.40 -7.10 1.3e-12 1.5e-10 RASAL3 64926
ENSG00000255760 66.56 -7.66 1.08 -7.09 1.3e-12 1.6e-10 LINC02422 105369723
ENSG00000268041 43.27 -4.37 0.62 -7.09 1.3e-12 1.6e-10 ERFL 390937
ENSG00000184293 66.17 -3.93 0.56 -7.08 1.4e-12 1.7e-10 CLECL1 160365
ENSG00000160654 225.41 -3.39 0.48 -7.08 1.4e-12 1.7e-10 CD3G 917
ENSG00000139193 663.94 -2.78 0.39 -7.08 1.4e-12 1.7e-10 CD27 939
ENSG00000225783 2059.09 -3.17 0.45 -7.07 1.5e-12 1.8e-10 MIAT 440823
ENSG00000106948 4666.65 -2.00 0.28 -7.06 1.7e-12 1.9e-10 AKNA 80709
ENSG00000116852 1167.04 -2.88 0.41 -7.04 1.9e-12 2.2e-10 KIF21B 23046
ENSG00000163508 258.50 -4.10 0.58 -7.04 1.9e-12 2.2e-10 EOMES 8320
ENSG00000138964 1969.45 -2.94 0.42 -7.04 1.9e-12 2.2e-10 PARVG 64098
ENSG00000066294 1082.72 -3.37 0.48 -7.04 2.0e-12 2.2e-10 CD84 8832
ENSG00000117009 83.18 -2.74 0.39 -7.04 2.0e-12 2.2e-10 KMO 8564
ENSG00000096996 279.73 -3.41 0.48 -7.03 2.0e-12 2.3e-10 IL12RB1 3594
ENSG00000196684 1138.53 -3.14 0.45 -7.02 2.2e-12 2.5e-10 HSH2D 84941
ENSG00000042980 1027.85 -3.33 0.47 -7.02 2.3e-12 2.6e-10 ADAM28 10863
ENSG00000230006 895.13 -4.38 0.62 -7.01 2.4e-12 2.6e-10 ANKRD36BP2 645784
ENSG00000106785 1091.58 -2.04 0.29 -7.00 2.5e-12 2.8e-10 TRIM14 9830
ENSG00000269220 126.20 -2.87 0.41 -6.99 2.7e-12 3.0e-10 LINC00528 200298
ENSG00000115232 745.68 -2.68 0.38 -6.98 2.9e-12 3.2e-10 ITGA4 3676
ENSG00000254838 1388.82 -2.89 0.41 -6.97 3.1e-12 3.4e-10 GVINP1 387751
ENSG00000116824 727.42 -3.13 0.45 -6.96 3.3e-12 3.6e-10 CD2 914
ENSG00000188282 89.78 -4.19 0.60 -6.95 3.7e-12 4.0e-10 RUFY4 285180
ENSG00000081237 4243.29 -3.12 0.45 -6.94 3.9e-12 4.2e-10 PTPRC 5788
ENSG00000124203 510.86 -3.29 0.47 -6.94 3.9e-12 4.2e-10 ZNF831 128611
ENSG00000156886 47.34 -4.91 0.71 -6.93 4.3e-12 4.5e-10 ITGAD 3681
ENSG00000110448 468.78 -3.41 0.49 -6.91 4.7e-12 5.0e-10 CD5 921
ENSG00000186517 1767.29 -2.85 0.41 -6.91 5.0e-12 5.2e-10 ARHGAP30 257106
ENSG00000198821 719.73 -2.96 0.43 -6.89 5.5e-12 5.7e-10 CD247 919
ENSG00000243811 486.16 -2.36 0.34 -6.85 7.2e-12 7.4e-10 APOBEC3D 140564
ENSG00000229474 332.35 -2.86 0.42 -6.85 7.4e-12 7.5e-10 PATL2 197135
ENSG00000127152 675.15 -2.20 0.32 -6.85 7.5e-12 7.6e-10 BCL11B 64919
ENSG00000154451 885.15 -3.30 0.48 -6.84 7.9e-12 8.0e-10 GBP5 115362
ENSG00000145649 265.76 -3.38 0.50 -6.82 8.9e-12 8.9e-10 GZMA 3001
ENSG00000167984 1240.40 -2.39 0.35 -6.80 1.0e-11 1.0e-09 NLRC3 197358
ENSG00000214900 151.13 -2.64 0.39 -6.80 1.0e-11 1.0e-09 LINC01588 283551
ENSG00000065357 3663.02 -2.46 0.36 -6.79 1.1e-11 1.1e-09 DGKA 1606
ENSG00000102962 87.49 -4.27 0.63 -6.79 1.1e-11 1.1e-09 CCL22 6367
ENSG00000168918 3150.63 -2.35 0.35 -6.77 1.3e-11 1.3e-09 INPP5D 3635
ENSG00000126860 388.69 -2.87 0.42 -6.77 1.3e-11 1.3e-09 EVI2A 2123
ENSG00000182010 303.05 -3.14 0.46 -6.76 1.4e-11 1.3e-09 RTKN2 219790
ENSG00000228427 26.74 -3.57 0.53 -6.76 1.4e-11 1.3e-09 LOC107985688 107985688
ENSG00000139626 1152.02 -2.26 0.33 -6.76 1.4e-11 1.3e-09 ITGB7 3695
ENSG00000015133 2228.14 -2.40 0.36 -6.75 1.5e-11 1.4e-09 CCDC88C 440193
ENSG00000134516 1685.07 -2.85 0.42 -6.75 1.5e-11 1.4e-09 DOCK2 1794
ENSG00000146094 1017.42 -2.61 0.39 -6.74 1.5e-11 1.5e-09 DOK3 79930
ENSG00000197471 561.09 -2.77 0.41 -6.74 1.6e-11 1.5e-09 SPN 6693
ENSG00000082074 535.10 -2.90 0.43 -6.74 1.6e-11 1.5e-09 FYB1 2533
ENSG00000237914 18.28 -4.87 0.72 -6.73 1.7e-11 1.5e-09 SIRPG-AS1 101929010
ENSG00000110324 2062.37 -2.41 0.36 -6.71 2.0e-11 1.8e-09 IL10RA 3587
ENSG00000127084 1813.78 -2.08 0.31 -6.69 2.2e-11 2.0e-09 FGD3 89846
ENSG00000178999 92.96 -3.55 0.53 -6.68 2.4e-11 2.2e-09 AURKB 9212
ENSG00000145287 218.06 -2.88 0.43 -6.68 2.4e-11 2.2e-09 PLAC8 51316
ENSG00000157303 360.65 -2.02 0.30 -6.68 2.4e-11 2.2e-09 SUSD3 203328
ENSG00000126882 674.55 -2.40 0.36 -6.67 2.6e-11 2.3e-09 FAM78A 286336
ENSG00000100351 318.80 -2.64 0.40 -6.67 2.6e-11 2.3e-09 GRAP2 9402
ENSG00000125245 108.95 -3.77 0.57 -6.66 2.7e-11 2.4e-09 GPR18 2841
ENSG00000137571 57.48 -3.57 0.54 -6.66 2.8e-11 2.5e-09 SLCO5A1 81796
ENSG00000143167 36.86 -4.33 0.65 -6.65 2.9e-11 2.6e-09 GPA33 10223
ENSG00000086730 792.00 -2.57 0.39 -6.65 3.0e-11 2.6e-09 LAT2 7462
ENSG00000020633 828.13 -2.99 0.45 -6.64 3.0e-11 2.7e-09 RUNX3 864
ENSG00000135960 17.02 -5.25 0.79 -6.63 3.4e-11 3.0e-09 EDAR 10913
ENSG00000180448 5433.87 -2.48 0.37 -6.62 3.5e-11 3.0e-09 ARHGAP45 23526
ENSG00000240505 194.19 -7.15 1.08 -6.61 3.8e-11 3.2e-09 TNFRSF13B 23495
ENSG00000164362 16.92 -5.78 0.87 -6.61 3.9e-11 3.3e-09 TERT 7015
ENSG00000178562 397.88 -3.93 0.60 -6.60 4.1e-11 3.5e-09 CD28 940
ENSG00000171848 191.86 -3.55 0.54 -6.60 4.2e-11 3.6e-09 RRM2 6241
ENSG00000134242 351.65 -2.78 0.42 -6.59 4.4e-11 3.7e-09 PTPN22 26191
ENSG00000135426 393.48 -3.10 0.47 -6.58 4.6e-11 3.8e-09 TESPA1 9840
ENSG00000102575 586.33 -2.38 0.36 -6.58 4.6e-11 3.9e-09 ACP5 54
ENSG00000140368 832.77 -2.79 0.42 -6.57 4.9e-11 4.1e-09 PSTPIP1 9051
ENSG00000184922 2543.64 -2.33 0.35 -6.56 5.2e-11 4.3e-09 FMNL1 752
ENSG00000134443 23.56 18.65 2.85 6.56 5.5e-11 4.5e-09 GRP 2922
ENSG00000163600 196.23 -3.96 0.60 -6.55 5.6e-11 4.6e-09 ICOS 29851
ENSG00000186854 220.97 -2.71 0.41 -6.54 6.1e-11 5.0e-09 TRABD2A 129293
ENSG00000116748 50.56 -3.58 0.55 -6.53 6.5e-11 5.3e-09 AMPD1 270
ENSG00000117560 65.53 -2.73 0.42 -6.51 7.3e-11 5.9e-09 FASLG 356
ENSG00000169679 127.09 -3.05 0.47 -6.51 7.3e-11 5.9e-09 BUB1 699
ENSG00000242258 54.79 -4.57 0.70 -6.51 7.7e-11 6.2e-09 LINC00996 285972
ENSG00000256574 14.46 -6.51 1.00 -6.50 7.8e-11 6.3e-09 OR13A1 79290
ENSG00000074966 380.15 -2.87 0.44 -6.50 8.0e-11 6.4e-09 TXK 7294
ENSG00000077984 420.51 -2.75 0.42 -6.48 9.3e-11 7.4e-09 CST7 8530
ENSG00000140451 166.49 -2.30 0.36 -6.47 9.7e-11 7.7e-09 PIF1 80119
ENSG00000204282 959.51 -2.45 0.38 -6.47 1.0e-10 7.9e-09 TNRC6C-AS1 100131096
ENSG00000213809 904.34 -2.82 0.44 -6.46 1.1e-10 8.3e-09 KLRK1 22914
ENSG00000160683 17.08 -5.61 0.87 -6.44 1.2e-10 9.6e-09 CXCR5 643
ENSG00000117215 163.73 -7.09 1.11 -6.42 1.4e-10 1.1e-08 PLA2G2D 26279
ENSG00000127074 130.32 -5.36 0.83 -6.42 1.4e-10 1.1e-08 RGS13 6003
ENSG00000117090 335.39 -3.33 0.52 -6.41 1.4e-10 1.1e-08 SLAMF1 6504
ENSG00000126353 492.55 -2.60 0.41 -6.41 1.5e-10 1.1e-08 CCR7 1236
ENSG00000066279 114.04 -3.10 0.48 -6.40 1.5e-10 1.2e-08 ASPM 259266
ENSG00000064201 185.99 -2.96 0.46 -6.40 1.5e-10 1.2e-08 TSPAN32 10077
ENSG00000188011 83.08 -3.47 0.54 -6.39 1.6e-10 1.2e-08 RTP5 285093
ENSG00000166707 140.92 -2.25 0.35 -6.39 1.6e-10 1.2e-08 ZCCHC18 644353
ENSG00000112195 61.98 -4.23 0.66 -6.39 1.6e-10 1.2e-08 TREML2 79865
ENSG00000181617 403.51 -8.85 1.39 -6.38 1.7e-10 1.3e-08 FDCSP 260436
ENSG00000141524 3991.16 -2.14 0.34 -6.38 1.8e-10 1.3e-08 TMC6 11322
ENSG00000049249 22.64 -4.07 0.64 -6.38 1.8e-10 1.4e-08 TNFRSF9 3604
ENSG00000179715 663.98 -2.37 0.37 -6.36 2.0e-10 1.5e-08 PCED1B 91523
ENSG00000172116 199.75 -2.75 0.43 -6.36 2.1e-10 1.5e-08 CD8B 926
ENSG00000137841 2627.68 -2.55 0.40 -6.34 2.3e-10 1.7e-08 PLCB2 5330
ENSG00000100365 986.25 -2.17 0.34 -6.34 2.3e-10 1.7e-08 NCF4 4689
ENSG00000103522 159.70 -3.29 0.52 -6.34 2.4e-10 1.7e-08 IL21R 50615
ENSG00000162897 78.95 -8.64 1.36 -6.33 2.4e-10 1.7e-08 FCAMR 83953
ENSG00000125910 380.75 -2.24 0.35 -6.33 2.4e-10 1.8e-08 S1PR4 8698
ENSG00000141506 998.02 -2.72 0.43 -6.33 2.4e-10 1.8e-08 PIK3R5 23533
ENSG00000144354 215.97 -2.79 0.44 -6.32 2.7e-10 2.0e-08 CDCA7 83879
ENSG00000188822 193.34 -3.30 0.52 -6.31 2.8e-10 2.1e-08 CNR2 1269
ENSG00000197549 30.14 -8.87 1.41 -6.30 2.9e-10 2.1e-08 PRAMENP 649179
ENSG00000164691 537.55 -2.90 0.46 -6.29 3.3e-10 2.3e-08 TAGAP 117289
ENSG00000162676 259.29 -2.42 0.39 -6.28 3.4e-10 2.4e-08 GFI1 2672
ENSG00000205045 197.51 -2.34 0.37 -6.28 3.4e-10 2.5e-08 SLFN12L 100506736
ENSG00000197520 58.61 -3.96 0.63 -6.27 3.5e-10 2.5e-08 FAM177B 400823
ENSG00000167664 28.86 -3.05 0.49 -6.27 3.6e-10 2.5e-08 TMIGD2 126259
ENSG00000122223 95.94 -2.89 0.46 -6.24 4.4e-10 3.1e-08 CD244 51744
ENSG00000128815 1099.25 -3.31 0.53 -6.23 4.6e-10 3.2e-08 WDFY4 57705
ENSG00000137101 691.00 -2.37 0.38 -6.23 4.6e-10 3.2e-08 CD72 971
ENSG00000204165 47.67 -3.65 0.59 -6.22 4.8e-10 3.4e-08 CXorf65 158830
ENSG00000136167 3536.69 -2.57 0.41 -6.22 4.9e-10 3.4e-08 LCP1 3936
ENSG00000246528 10.50 -5.95 0.96 -6.21 5.2e-10 3.6e-08 LOC101929759 101929759
ENSG00000237499 284.96 -2.63 0.42 -6.21 5.3e-10 3.7e-08 WAKMAR2 100130476
ENSG00000232788 28.13 -2.34 0.38 -6.21 5.4e-10 3.7e-08 ITGA6-AS1 101929947
ENSG00000163519 130.38 -3.50 0.56 -6.21 5.5e-10 3.7e-08 TRAT1 50852
ENSG00000267121 813.19 -2.95 0.48 -6.20 5.6e-10 3.8e-08 LOC339192 339192
ENSG00000165066 16.04 -4.58 0.74 -6.18 6.4e-10 4.3e-08 NKX6-3 157848
ENSG00000180096 34.62 -2.22 0.36 -6.18 6.6e-10 4.4e-08 SEPTIN1 1731
ENSG00000069493 1234.84 -2.42 0.39 -6.17 6.7e-10 4.5e-08 CLEC2D 29121
ENSG00000073861 176.67 -2.63 0.43 -6.17 6.8e-10 4.5e-08 TBX21 30009
ENSG00000171241 105.73 -2.94 0.48 -6.17 7.0e-10 4.7e-08 SHCBP1 79801
ENSG00000136541 117.63 -3.36 0.55 -6.16 7.1e-10 4.7e-08 ERMN 57471
ENSG00000123219 88.45 -2.15 0.35 -6.15 7.6e-10 5.0e-08 CENPK 64105
ENSG00000130812 56.45 -2.99 0.49 -6.15 7.6e-10 5.0e-08 ANGPTL6 83854
ENSG00000164483 214.56 -2.94 0.48 -6.15 7.7e-10 5.0e-08 SAMD3 154075
ENSG00000049768 114.45 -2.57 0.42 -6.14 8.3e-10 5.4e-08 FOXP3 50943
ENSG00000186185 103.07 -3.15 0.51 -6.13 8.5e-10 5.6e-08 KIF18B 146909
ENSG00000114200 124.34 2.11 0.34 6.13 8.9e-10 5.7e-08 BCHE 590
ENSG00000153563 865.55 -2.24 0.37 -6.12 9.6e-10 6.2e-08 CD8A 925
ENSG00000118308 1124.40 -2.32 0.38 -6.11 9.8e-10 6.3e-08 LRMP 4033
ENSG00000198846 346.86 -2.00 0.33 -6.10 1.1e-09 6.9e-08 TOX 9760
ENSG00000134539 112.52 -2.08 0.34 -6.10 1.1e-09 7.0e-08 KLRD1 3824
ENSG00000077420 829.05 -2.03 0.33 -6.09 1.2e-09 7.3e-08 APBB1IP 54518
ENSG00000141293 239.61 -2.44 0.40 -6.07 1.3e-09 7.9e-08 SKAP1 8631
ENSG00000070915 19.21 -3.38 0.56 -6.07 1.3e-09 8.3e-08 SLC12A3 6559
ENSG00000138755 1841.40 -3.67 0.61 -6.06 1.4e-09 8.8e-08 CXCL9 4283
ENSG00000089820 4408.06 -2.22 0.37 -6.04 1.6e-09 9.7e-08 ARHGAP4 393
ENSG00000171320 23.91 -2.98 0.49 -6.03 1.6e-09 1.0e-07 ESCO2 157570
ENSG00000141968 727.95 -2.62 0.43 -6.03 1.6e-09 1.0e-07 VAV1 7409
ENSG00000104972 637.43 -3.19 0.53 -6.02 1.7e-09 1.1e-07 LILRB1 10859
ENSG00000182183 111.20 -2.51 0.42 -6.01 1.8e-09 1.1e-07 SHISAL2A 348378
ENSG00000156970 124.85 -2.54 0.42 -6.01 1.9e-09 1.2e-07 BUB1B 701
ENSG00000246582 56.58 -2.20 0.37 -6.01 1.9e-09 1.2e-07 LOC389641 389641
ENSG00000161405 184.89 -3.57 0.60 -6.00 2.0e-09 1.2e-07 IKZF3 22806
ENSG00000142347 1649.55 -2.08 0.35 -5.99 2.1e-09 1.2e-07 MYO1F 4542
ENSG00000101194 1761.68 -2.76 0.46 -5.99 2.1e-09 1.3e-07 SLC17A9 63910
ENSG00000251002 13.47 -4.61 0.77 -5.98 2.2e-09 1.3e-07 LOC105370401 105370401
ENSG00000234572 10.73 -6.66 1.11 -5.98 2.3e-09 1.4e-07 LINC01800 101927438
ENSG00000175063 112.10 -3.07 0.51 -5.98 2.3e-09 1.4e-07 UBE2C 11065
ENSG00000213886 44.34 -5.57 0.93 -5.96 2.5e-09 1.5e-07 UBD 10537
ENSG00000165304 52.35 -2.96 0.50 -5.96 2.5e-09 1.5e-07 MELK 9833
ENSG00000073737 48.66 -2.77 0.46 -5.96 2.6e-09 1.5e-07 DHRS9 10170
ENSG00000134028 162.53 -4.53 0.76 -5.95 2.6e-09 1.5e-07 ADAMDEC1 27299
ENSG00000181036 125.93 -2.90 0.49 -5.95 2.7e-09 1.6e-07 FCRL6 343413
ENSG00000172575 419.38 -2.68 0.45 -5.94 2.8e-09 1.6e-07 RASGRP1 10125
ENSG00000023892 2014.24 -2.07 0.35 -5.93 3.0e-09 1.7e-07 DEF6 50619
ENSG00000153898 283.70 -3.35 0.57 -5.92 3.1e-09 1.8e-07 MCOLN2 255231
ENSG00000137804 236.16 -2.32 0.39 -5.92 3.1e-09 1.8e-07 NUSAP1 51203
ENSG00000113263 1144.03 -3.22 0.54 -5.92 3.2e-09 1.8e-07 ITK 3702
ENSG00000237945 471.01 -2.07 0.35 -5.91 3.4e-09 2.0e-07 LINC00649 100506334
ENSG00000148773 478.57 -3.01 0.51 -5.90 3.5e-09 2.0e-07 MKI67 4288
ENSG00000140030 129.41 -2.45 0.42 -5.89 3.9e-09 2.2e-07 GPR65 8477
ENSG00000143185 35.99 -3.38 0.57 -5.88 4.1e-09 2.4e-07 XCL2 6846
ENSG00000023445 2229.36 -2.52 0.43 -5.87 4.2e-09 2.4e-07 BIRC3 330
ENSG00000112799 152.99 -2.73 0.47 -5.86 4.7e-09 2.7e-07 LY86 9450
ENSG00000074370 5639.37 -2.08 0.36 -5.85 4.9e-09 2.8e-07 ATP2A3 489
ENSG00000089692 272.00 -2.69 0.46 -5.85 5.0e-09 2.8e-07 LAG3 3902
ENSG00000188263 29.39 -4.31 0.74 -5.84 5.2e-09 2.9e-07 IL17REL 400935
ENSG00000167476 115.03 -3.56 0.61 -5.83 5.5e-09 3.0e-07 JSRP1 126306
ENSG00000088340 1127.95 -3.14 0.54 -5.82 5.9e-09 3.3e-07 FER1L4 80307
ENSG00000204252 1384.61 -2.11 0.36 -5.80 6.4e-09 3.5e-07 HLA-DOA 3111
ENSG00000160593 792.04 -2.25 0.39 -5.80 6.6e-09 3.6e-07 JAML 120425
ENSG00000123485 87.96 -3.00 0.52 -5.79 7.0e-09 3.8e-07 HJURP 55355
ENSG00000135898 40.16 -3.19 0.55 -5.79 7.2e-09 3.9e-07 GPR55 9290
ENSG00000115165 1011.84 -2.77 0.48 -5.78 7.4e-09 4.0e-07 CYTIP 9595
ENSG00000075218 77.28 -2.32 0.40 -5.77 7.9e-09 4.3e-07 GTSE1 51512
ENSG00000100162 71.73 -2.87 0.50 -5.77 8.0e-09 4.4e-07 CENPM 79019
ENSG00000007264 256.05 -2.12 0.37 -5.76 8.2e-09 4.4e-07 MATK 4145
ENSG00000120280 79.82 -2.64 0.46 -5.76 8.4e-09 4.5e-07 CXorf21 80231
ENSG00000140678 1886.44 -2.69 0.47 -5.74 9.2e-09 4.9e-07 ITGAX 3687
ENSG00000183542 93.06 -2.31 0.40 -5.74 9.2e-09 4.9e-07 KLRC4 8302
ENSG00000235621 73.66 -5.38 0.94 -5.74 9.7e-09 5.2e-07 LINC00494 284749
ENSG00000205784 41.46 -3.21 0.56 -5.74 9.7e-09 5.2e-07 ARRDC5 645432
ENSG00000245648 48.61 -2.54 0.44 -5.73 1.0e-08 5.3e-07 LOC101928100 101928100
ENSG00000089685 44.79 -2.80 0.49 -5.73 1.0e-08 5.3e-07 BIRC5 332
ENSG00000121966 6073.41 -2.95 0.52 -5.73 1.0e-08 5.4e-07 CXCR4 7852
ENSG00000051341 75.63 -2.93 0.51 -5.72 1.0e-08 5.5e-07 POLQ 10721
ENSG00000233360 7.79 -2.98 0.52 -5.72 1.1e-08 5.6e-07 LOC101927051 101927051
ENSG00000245954 30.44 -4.55 0.79 -5.72 1.1e-08 5.7e-07 LINC02273 100996286
ENSG00000177699 6.07 -4.28 0.75 -5.71 1.1e-08 5.8e-07 LOC100129540 100129540
ENSG00000101082 176.51 -2.63 0.46 -5.71 1.1e-08 5.9e-07 SLA2 84174
ENSG00000109805 81.66 -2.60 0.46 -5.70 1.2e-08 6.3e-07 NCAPG 64151
ENSG00000118513 99.57 -3.17 0.56 -5.69 1.2e-08 6.5e-07 MYB 4602
ENSG00000131401 548.49 -3.11 0.55 -5.69 1.3e-08 6.6e-07 NAPSB 256236
ENSG00000163376 179.17 -2.43 0.43 -5.69 1.3e-08 6.7e-07 KBTBD8 84541
ENSG00000146670 143.35 -2.02 0.36 -5.68 1.4e-08 7.1e-07 CDCA5 113130
ENSG00000135476 124.18 -2.42 0.43 -5.67 1.4e-08 7.2e-07 ESPL1 9700
ENSG00000253490 17.07 -4.63 0.82 -5.67 1.4e-08 7.2e-07 LINC02099 101929450
ENSG00000203710 204.31 -2.79 0.49 -5.65 1.6e-08 8.2e-07 CR1 1378
ENSG00000049247 16.49 -5.04 0.89 -5.64 1.7e-08 8.5e-07 UTS2 10911
ENSG00000172543 365.24 -2.55 0.45 -5.64 1.7e-08 8.5e-07 CTSW 1521
ENSG00000236320 24.36 -3.13 0.56 -5.64 1.7e-08 8.8e-07 SLFN14 342618
ENSG00000099958 2327.84 -2.26 0.40 -5.63 1.8e-08 9.1e-07 DERL3 91319
ENSG00000140968 1478.13 -2.62 0.47 -5.62 1.9e-08 9.8e-07 IRF8 3394
ENSG00000121152 76.69 -2.36 0.42 -5.60 2.2e-08 1.1e-06 NCAPH 23397
ENSG00000111863 70.47 -2.40 0.43 -5.58 2.5e-08 1.2e-06 ADTRP 84830
ENSG00000156127 169.87 -2.45 0.44 -5.57 2.6e-08 1.3e-06 BATF 10538
ENSG00000100055 1351.72 -2.22 0.40 -5.56 2.7e-08 1.3e-06 CYTH4 27128
ENSG00000232810 92.96 -4.01 0.72 -5.55 2.9e-08 1.4e-06 TNF 7124
ENSG00000183813 147.90 -3.64 0.66 -5.54 3.0e-08 1.4e-06 CCR4 1233
ENSG00000160224 54.03 -3.37 0.61 -5.54 3.0e-08 1.5e-06 AIRE 326
ENSG00000154839 26.76 -2.56 0.46 -5.54 3.0e-08 1.5e-06 SKA1 220134
ENSG00000174255 90.92 -3.50 0.63 -5.54 3.0e-08 1.5e-06 ZNF80 7634
ENSG00000173762 528.24 -2.47 0.45 -5.53 3.1e-08 1.5e-06 CD7 924
ENSG00000105967 382.39 -2.22 0.40 -5.53 3.2e-08 1.6e-06 TFEC 22797
ENSG00000152270 373.70 -2.57 0.46 -5.52 3.4e-08 1.6e-06 PDE3B 5140
ENSG00000197540 144.50 -2.58 0.47 -5.52 3.4e-08 1.6e-06 GZMM 3004
ENSG00000012779 1314.57 -2.32 0.42 -5.52 3.5e-08 1.7e-06 ALOX5 240
ENSG00000180535 31.95 -2.96 0.54 -5.50 3.8e-08 1.8e-06 BHLHA15 168620
ENSG00000163564 462.98 -3.16 0.58 -5.50 3.9e-08 1.8e-06 PYHIN1 149628
ENSG00000254887 12.31 -4.04 0.73 -5.50 3.9e-08 1.8e-06 LOC100505622 100505622
ENSG00000152207 56.44 -2.42 0.44 -5.48 4.2e-08 2.0e-06 CYSLTR2 57105
ENSG00000186810 186.95 -2.71 0.49 -5.48 4.3e-08 2.0e-06 CXCR3 2833
ENSG00000174946 225.35 -3.15 0.57 -5.48 4.3e-08 2.0e-06 GPR171 29909
ENSG00000108405 264.87 -2.46 0.45 -5.48 4.3e-08 2.0e-06 P2RX1 5023
ENSG00000179253 4.38 -5.14 0.94 -5.47 4.4e-08 2.1e-06 LOC100128310 100128310
ENSG00000123338 1092.73 -2.30 0.42 -5.47 4.4e-08 2.1e-06 NCKAP1L 3071
ENSG00000139618 105.79 -2.05 0.38 -5.45 5.1e-08 2.4e-06 BRCA2 675
ENSG00000109684 106.06 -3.63 0.67 -5.44 5.2e-08 2.4e-06 CLNK 116449
ENSG00000167094 141.40 -2.20 0.40 -5.44 5.2e-08 2.4e-06 TTC16 158248
ENSG00000211689 84.74 -2.84 0.52 -5.44 5.3e-08 2.5e-06 TARP 445347
ENSG00000221946 32.26 -2.66 0.49 -5.44 5.5e-08 2.5e-06 FXYD7 53822
ENSG00000231964 36.37 -2.94 0.54 -5.43 5.6e-08 2.6e-06 LOC102724323 102724323
ENSG00000159556 10.15 -4.55 0.84 -5.43 5.7e-08 2.6e-06 ISL2 64843
ENSG00000253522 119.42 -2.90 0.53 -5.43 5.7e-08 2.6e-06 MIR3142HG 107075116
ENSG00000135925 96.55 -3.16 0.58 -5.43 5.8e-08 2.6e-06 WNT10A 80326
ENSG00000120949 46.74 -2.30 0.42 -5.42 5.8e-08 2.7e-06 TNFRSF8 943
ENSG00000224557 20.27 -3.12 0.58 -5.42 5.9e-08 2.7e-06 HLA-DPB2 3116
ENSG00000132744 36.52 -3.97 0.73 -5.41 6.2e-08 2.8e-06 ACY3 91703
ENSG00000153789 9.78 -4.33 0.80 -5.41 6.3e-08 2.9e-06 FAM92B 339145
ENSG00000105501 58.61 -2.22 0.41 -5.40 6.6e-08 3.0e-06 SIGLEC5 8778
ENSG00000127561 73.49 -2.25 0.42 -5.39 7.2e-08 3.2e-06 SYNGR3 9143
ENSG00000105374 398.26 -2.66 0.49 -5.38 7.5e-08 3.4e-06 NKG7 4818
ENSG00000169495 33.19 -2.13 0.40 -5.37 7.7e-08 3.5e-06 HTRA4 203100
ENSG00000188042 1333.74 -2.01 0.38 -5.36 8.2e-08 3.6e-06 ARL4C 10123
ENSG00000140379 152.40 -2.57 0.48 -5.35 9.0e-08 4.0e-06 BCL2A1 597
ENSG00000061656 239.64 -2.11 0.40 -5.34 9.2e-08 4.0e-06 SPAG4 6676
ENSG00000111732 35.65 -5.37 1.01 -5.34 9.4e-08 4.1e-06 AICDA 57379
ENSG00000183150 19.99 -2.44 0.46 -5.33 9.7e-08 4.2e-06 GPR19 2842
ENSG00000102445 161.86 -2.24 0.42 -5.33 9.9e-08 4.3e-06 RUBCNL 80183
ENSG00000136286 1442.80 -2.61 0.49 -5.32 1.0e-07 4.5e-06 MYO1G 64005
ENSG00000126787 62.17 -3.43 0.64 -5.32 1.1e-07 4.6e-06 DLGAP5 9787
ENSG00000268758 74.59 -2.79 0.53 -5.30 1.1e-07 4.9e-06 ADGRE4P 326342
ENSG00000152213 88.50 -2.05 0.39 -5.29 1.2e-07 5.1e-06 ARL11 115761
ENSG00000172673 171.59 -2.58 0.49 -5.29 1.2e-07 5.3e-06 THEMIS 387357
ENSG00000163630 63.59 -3.35 0.63 -5.28 1.3e-07 5.5e-06 SYNPR 132204
ENSG00000011590 135.48 -2.63 0.50 -5.27 1.3e-07 5.6e-06 ZBTB32 27033
ENSG00000229228 10.05 -3.55 0.67 -5.27 1.4e-07 5.8e-06 LINC00582 100287814
ENSG00000253686 25.08 -3.11 0.59 -5.27 1.4e-07 5.8e-06 LINC01484 101928136
ENSG00000226025 56.41 -3.82 0.73 -5.26 1.4e-07 6.1e-06 LGALS17A 400696
ENSG00000142583 245.92 -2.64 0.50 -5.26 1.5e-07 6.1e-06 SLC2A5 6518
ENSG00000124557 16.19 -3.00 0.57 -5.26 1.5e-07 6.2e-06 BTN1A1 696
ENSG00000120659 43.46 -5.10 0.97 -5.25 1.5e-07 6.3e-06 TNFSF11 8600
ENSG00000060140 32.48 -2.49 0.47 -5.25 1.5e-07 6.4e-06 STYK1 55359
ENSG00000138623 426.67 -2.17 0.41 -5.25 1.5e-07 6.5e-06 SEMA7A 8482
ENSG00000105011 107.44 -2.20 0.42 -5.24 1.6e-07 6.7e-06 ASF1B 55723
ENSG00000026559 39.57 -2.47 0.47 -5.22 1.8e-07 7.2e-06 KCNG1 3755
ENSG00000110876 665.35 -2.10 0.40 -5.21 1.8e-07 7.6e-06 SELPLG 6404
ENSG00000205436 152.67 -2.95 0.56 -5.21 1.9e-07 7.6e-06 EXOC3L4 91828
ENSG00000218018 17.34 -2.29 0.44 -5.20 2.0e-07 8.3e-06 LOC100291105 100291105
ENSG00000158485 9.84 -4.25 0.82 -5.19 2.1e-07 8.5e-06 CD1B 910
ENSG00000151790 33.12 -3.63 0.70 -5.18 2.2e-07 9.1e-06 TDO2 6999
ENSG00000250155 11.68 -3.10 0.60 -5.18 2.2e-07 9.1e-06 LOC107986412 107986412
ENSG00000180549 69.07 -2.54 0.49 -5.17 2.4e-07 9.7e-06 FUT7 2529
ENSG00000115956 1084.22 -2.20 0.43 -5.17 2.4e-07 9.7e-06 PLEK 5341
ENSG00000118193 44.21 -2.21 0.43 -5.15 2.6e-07 1.0e-05 KIF14 9928
ENSG00000197299 143.60 -2.04 0.40 -5.15 2.7e-07 1.1e-05 BLM 641
ENSG00000174371 36.95 -2.04 0.40 -5.13 2.9e-07 1.2e-05 EXO1 9156
ENSG00000106952 151.55 -2.80 0.55 -5.11 3.2e-07 1.3e-05 TNFSF8 944
ENSG00000245466 17.39 -3.46 0.68 -5.10 3.4e-07 1.3e-05 LOC101928075 101928075
ENSG00000117724 179.32 -2.09 0.41 -5.10 3.5e-07 1.3e-05 CENPF 1063
ENSG00000160791 277.00 -2.13 0.42 -5.07 4.0e-07 1.6e-05 CCR5 1234
ENSG00000216863 9.33 -4.38 0.87 -5.04 4.7e-07 1.8e-05 LY86-AS1 285780
ENSG00000185527 32.65 -2.25 0.45 -5.03 5.0e-07 1.9e-05 PDE6G 5148
ENSG00000251301 60.41 -3.07 0.61 -5.02 5.2e-07 2.0e-05 LINC02384 100507195
ENSG00000189057 49.35 -2.42 0.48 -5.01 5.5e-07 2.1e-05 FAM111B 374393
ENSG00000230937 81.15 -3.59 0.72 -5.00 5.8e-07 2.2e-05 MIR205HG 642587
ENSG00000007968 145.96 -2.63 0.53 -5.00 5.9e-07 2.2e-05 E2F2 1870
ENSG00000093009 54.14 -2.22 0.44 -4.99 6.1e-07 2.3e-05 CDC45 8318
ENSG00000111537 30.77 -3.82 0.77 -4.95 7.4e-07 2.7e-05 IFNG 3458
ENSG00000105255 36.63 -2.41 0.49 -4.94 7.9e-07 2.9e-05 FSD1 79187
ENSG00000121807 336.84 -2.51 0.51 -4.94 7.9e-07 2.9e-05 CCR2 729230
ENSG00000143228 67.52 -2.11 0.43 -4.92 8.7e-07 3.2e-05 NUF2 83540
ENSG00000012124 2713.50 -3.07 0.63 -4.90 9.6e-07 3.5e-05 CD22 933
ENSG00000248329 4.89 -5.63 1.15 -4.90 9.8e-07 3.5e-05 APELA 100506013
ENSG00000168685 3193.54 -2.95 0.60 -4.89 9.9e-07 3.5e-05 IL7R 3575
ENSG00000179813 11.06 -4.76 0.97 -4.89 9.9e-07 3.5e-05 FAM216B 144809
ENSG00000143869 43.23 -2.44 0.50 -4.89 1.0e-06 3.6e-05 GDF7 151449
ENSG00000265148 43.22 -2.03 0.42 -4.87 1.1e-06 4.0e-05 TSPOAP1-AS1 100506779
ENSG00000120332 270.61 2.57 0.53 4.85 1.2e-06 4.3e-05 TNN 63923
ENSG00000189238 34.07 -2.45 0.50 -4.85 1.2e-06 4.3e-05 LINC00943 100507206
ENSG00000223823 10.34 -2.52 0.52 -4.85 1.2e-06 4.3e-05 LINC01342 254099
ENSG00000131747 311.35 -2.23 0.46 -4.85 1.3e-06 4.4e-05 TOP2A 7153
ENSG00000260101 25.35 -2.34 0.48 -4.84 1.3e-06 4.6e-05 LOC101927402 101927402
ENSG00000234965 7.21 -5.43 1.12 -4.83 1.3e-06 4.7e-05 SHISA8 440829
ENSG00000165480 25.08 -2.45 0.51 -4.83 1.4e-06 4.8e-05 SKA3 221150
ENSG00000230709 9.90 -4.02 0.83 -4.83 1.4e-06 4.8e-05 LOC284191 284191
ENSG00000109101 65.96 -2.11 0.44 -4.82 1.4e-06 5.0e-05 FOXN1 8456
ENSG00000189430 12.94 -2.41 0.50 -4.82 1.4e-06 5.0e-05 NCR1 9437
ENSG00000152495 392.69 -2.65 0.55 -4.80 1.6e-06 5.4e-05 CAMK4 814
ENSG00000214894 23.76 -3.11 0.65 -4.79 1.6e-06 5.6e-05 LINC00243 401247
ENSG00000158477 22.99 -5.09 1.07 -4.77 1.8e-06 6.2e-05 CD1A 909
ENSG00000136492 40.74 -2.25 0.47 -4.77 1.8e-06 6.2e-05 BRIP1 83990
ENSG00000179583 3030.63 -2.01 0.42 -4.76 1.9e-06 6.5e-05 CIITA 4261
ENSG00000173585 8.82 -2.59 0.55 -4.75 2.0e-06 6.7e-05 CCR9 10803
ENSG00000050730 19.32 -3.12 0.66 -4.74 2.1e-06 7.1e-05 TNIP3 79931
ENSG00000186891 184.16 -2.75 0.58 -4.74 2.1e-06 7.1e-05 TNFRSF18 8784
ENSG00000129204 428.14 2.09 0.44 4.74 2.1e-06 7.1e-05 USP6 9098
ENSG00000177272 229.31 -2.08 0.44 -4.73 2.2e-06 7.4e-05 KCNA3 3738
ENSG00000100985 292.17 -2.80 0.59 -4.71 2.4e-06 8.0e-05 MMP9 4318
ENSG00000166428 129.30 -2.51 0.53 -4.70 2.6e-06 8.5e-05 PLD4 122618
ENSG00000129810 25.65 -2.46 0.52 -4.69 2.7e-06 8.9e-05 SGO1 151648
ENSG00000006128 298.53 3.09 0.66 4.66 3.2e-06 1.0e-04 TAC1 6863
ENSG00000170486 52.53 -3.42 0.74 -4.65 3.4e-06 1.1e-04 KRT72 140807
ENSG00000246084 10.33 -3.56 0.77 -4.64 3.5e-06 1.1e-04 LINC02325 101929241
ENSG00000261448 8.99 -2.89 0.62 -4.64 3.5e-06 1.1e-04 LOC102723692 102723692
ENSG00000239961 14.34 -2.52 0.54 -4.64 3.5e-06 1.1e-04 LILRA4 23547
ENSG00000024526 36.20 -2.30 0.50 -4.63 3.6e-06 1.1e-04 DEPDC1 55635
ENSG00000105366 66.13 -3.06 0.66 -4.62 3.9e-06 1.2e-04 SIGLEC8 27181
ENSG00000255833 22.38 -3.56 0.77 -4.61 4.0e-06 1.3e-04 TIFAB 497189
ENSG00000158488 77.18 -3.71 0.81 -4.59 4.5e-06 1.4e-04 CD1E 913
ENSG00000164512 80.79 -3.79 0.83 -4.58 4.6e-06 1.4e-04 ANKRD55 79722
ENSG00000187808 29.04 -2.47 0.54 -4.58 4.7e-06 1.5e-04 SOWAHD 347454
ENSG00000179873 8.88 -3.97 0.87 -4.57 4.8e-06 1.5e-04 NLRP11 204801
ENSG00000058335 38.67 -2.00 0.44 -4.56 5.1e-06 1.6e-04 RASGRF1 5923
ENSG00000166736 39.63 -4.36 0.96 -4.55 5.3e-06 1.6e-04 HTR3A 3359
ENSG00000187510 24.64 -6.05 1.33 -4.55 5.3e-06 1.6e-04 C12orf74 338809
ENSG00000145850 134.79 -3.00 0.66 -4.55 5.5e-06 1.7e-04 TIMD4 91937
ENSG00000127564 80.30 -2.07 0.46 -4.54 5.7e-06 1.8e-04 PKMYT1 9088
ENSG00000166268 25.32 -2.74 0.60 -4.53 5.8e-06 1.8e-04 MYRFL 196446
ENSG00000263413 2.00 -4.97 1.10 -4.53 5.8e-06 1.8e-04 MIR4538 100616276
ENSG00000185697 348.59 -2.19 0.48 -4.53 5.9e-06 1.8e-04 MYBL1 4603
ENSG00000172724 3885.91 -3.60 0.80 -4.52 6.1e-06 1.8e-04 CCL19 6363
ENSG00000236977 3.04 -3.61 0.80 -4.52 6.2e-06 1.9e-04 ANKRD44-IT1 101927547
ENSG00000090889 59.97 -2.11 0.47 -4.52 6.2e-06 1.9e-04 KIF4A 24137
ENSG00000188886 10.63 -3.67 0.81 -4.52 6.2e-06 1.9e-04 ASTL 431705
ENSG00000105639 3460.33 -2.03 0.45 -4.51 6.3e-06 1.9e-04 JAK3 3718
ENSG00000114013 222.88 -2.00 0.44 -4.51 6.4e-06 1.9e-04 CD86 942
ENSG00000107593 6.77 -3.26 0.72 -4.51 6.6e-06 2.0e-04 PKD2L1 9033
ENSG00000113249 13.23 -3.53 0.79 -4.49 7.0e-06 2.1e-04 HAVCR1 26762
ENSG00000159337 7.06 -3.34 0.75 -4.45 8.5e-06 2.5e-04 PLA2G4D 283748
ENSG00000204277 7.23 -3.32 0.75 -4.41 1.0e-05 3.0e-04 LINC01993 100996291
ENSG00000253364 31.17 -3.05 0.69 -4.41 1.0e-05 3.0e-04 COPDA1 115253418
ENSG00000125084 13.22 -2.19 0.50 -4.40 1.1e-05 3.1e-04 WNT1 7471
ENSG00000233308 2.49 -4.59 1.05 -4.39 1.1e-05 3.2e-04 OSTN-AS1 106480738
ENSG00000148204 84.17 -2.26 0.52 -4.38 1.2e-05 3.4e-04 CRB2 286204
ENSG00000228590 6.43 -4.14 0.95 -4.37 1.2e-05 3.5e-04 MIR4432HG 106660609
ENSG00000148600 177.71 -2.24 0.51 -4.37 1.3e-05 3.5e-04 CDHR1 92211
ENSG00000254211 7.61 -3.15 0.72 -4.35 1.3e-05 3.7e-04 LINC01485 101928154
ENSG00000142512 374.65 -2.53 0.58 -4.34 1.5e-05 4.0e-04 SIGLEC10 89790
ENSG00000124721 47.05 -3.07 0.71 -4.33 1.5e-05 4.0e-04 DNAH8 1769
ENSG00000161270 22.82 -3.82 0.88 -4.33 1.5e-05 4.1e-04 NPHS1 4868
ENSG00000186049 10.72 -2.55 0.59 -4.33 1.5e-05 4.1e-04 KRT73 319101
ENSG00000133105 15.25 3.92 0.91 4.33 1.5e-05 4.1e-04 RXFP2 122042
ENSG00000174885 60.33 -2.53 0.59 -4.31 1.6e-05 4.5e-04 NLRP6 171389
ENSG00000169575 2.94 -5.01 1.16 -4.30 1.7e-05 4.6e-04 VPREB1 7441
ENSG00000155307 398.08 -2.10 0.49 -4.28 1.9e-05 5.0e-04 SAMSN1 64092
ENSG00000162366 102.34 -2.20 0.52 -4.27 1.9e-05 5.2e-04 PDZK1IP1 10158
ENSG00000181143 385.07 -3.51 0.82 -4.26 2.0e-05 5.4e-04 MUC16 94025
ENSG00000214999 15.30 -2.45 0.58 -4.26 2.0e-05 5.4e-04 LOC107985075 107985075
ENSG00000260228 8.66 -2.43 0.57 -4.25 2.1e-05 5.6e-04 LOC102724163 102724163
ENSG00000236081 5.19 -4.31 1.01 -4.25 2.2e-05 5.7e-04 ELFN1-AS1 101927125
ENSG00000232629 334.74 -2.64 0.62 -4.24 2.3e-05 6.0e-04 HLA-DQB2 3120
ENSG00000253633 6.93 -3.85 0.91 -4.23 2.3e-05 6.0e-04 LOC107986898 107986898
ENSG00000122025 84.00 -2.44 0.58 -4.23 2.3e-05 6.1e-04 FLT3 2322
ENSG00000057294 126.29 -2.08 0.49 -4.23 2.3e-05 6.2e-04 PKP2 5318
ENSG00000170858 3.80 -2.75 0.65 -4.22 2.4e-05 6.3e-04 LILRP2 79166
ENSG00000164112 14.24 -2.58 0.61 -4.21 2.6e-05 6.8e-04 TMEM155 132332
ENSG00000105492 17.05 -2.82 0.67 -4.19 2.8e-05 7.2e-04 SIGLEC6 946
ENSG00000164485 3.88 -5.83 1.39 -4.19 2.8e-05 7.3e-04 IL22RA2 116379
ENSG00000167769 12.90 -2.06 0.49 -4.19 2.8e-05 7.3e-04 ACER1 125981
ENSG00000116147 42.65 -2.58 0.62 -4.18 2.9e-05 7.4e-04 TNR 7143
ENSG00000131650 14.01 -2.48 0.59 -4.18 2.9e-05 7.5e-04 KREMEN2 79412
ENSG00000102245 114.28 -2.46 0.59 -4.18 2.9e-05 7.5e-04 CD40LG 959
ENSG00000115163 29.30 -2.17 0.52 -4.17 3.0e-05 7.6e-04 CENPA 1058
ENSG00000266913 2.98 -3.73 0.90 -4.14 3.4e-05 8.6e-04 LINC01841 105372288
ENSG00000213231 4.13 -3.81 0.92 -4.14 3.5e-05 8.8e-04 TCL1B 9623
ENSG00000091181 12.89 -2.50 0.61 -4.12 3.8e-05 9.4e-04 IL5RA 3568
ENSG00000181074 40.60 -2.50 0.61 -4.12 3.8e-05 9.5e-04 OR52N4 390072
ENSG00000144218 372.43 -2.06 0.50 -4.12 3.8e-05 9.5e-04 AFF3 3899
ENSG00000203721 5.53 -2.01 0.49 -4.12 3.8e-05 9.5e-04 LINC00862 554279
ENSG00000110848 1023.97 -2.32 0.56 -4.11 3.9e-05 9.6e-04 CD69 969
ENSG00000073734 8.92 -2.50 0.61 -4.11 4.0e-05 9.9e-04 ABCB11 8647
ENSG00000137673 23.60 -3.21 0.78 -4.11 4.0e-05 9.9e-04 MMP7 4316
ENSG00000158481 146.38 -2.60 0.64 -4.10 4.1e-05 1.0e-03 CD1C 911
ENSG00000144460 7.44 -3.97 0.97 -4.10 4.1e-05 1.0e-03 NYAP2 57624
ENSG00000225362 35.25 2.21 0.54 4.10 4.1e-05 1.0e-03 CT62 196993
ENSG00000167634 6.51 -2.55 0.63 -4.08 4.5e-05 1.1e-03 NLRP7 199713
ENSG00000237484 15.36 -2.06 0.51 -4.07 4.7e-05 1.1e-03 LINC01684 105372751
ENSG00000231621 6.58 -3.55 0.88 -4.05 5.0e-05 1.2e-03 ANKRD44-AS1 101927596
ENSG00000143552 143.99 3.59 0.89 4.02 5.7e-05 1.3e-03 NUP210L 91181
ENSG00000169413 401.36 -2.04 0.51 -4.02 5.7e-05 1.3e-03 RNASE6 6039
ENSG00000187997 6.49 -4.09 1.03 -3.98 6.8e-05 1.6e-03 C17orf99 100141515
ENSG00000090104 4596.00 -2.42 0.61 -3.98 7.0e-05 1.6e-03 RGS1 5996
ENSG00000227145 8.84 -4.17 1.05 -3.97 7.2e-05 1.7e-03 IL21-AS1 100996941
ENSG00000235295 2.39 -4.13 1.04 -3.96 7.6e-05 1.7e-03 LINC01634 100192420
ENSG00000093134 24.68 -2.19 0.55 -3.95 7.9e-05 1.8e-03 VNN3 55350
ENSG00000147614 11.31 -2.55 0.65 -3.94 8.2e-05 1.9e-03 ATP6V0D2 245972
ENSG00000179934 4.16 -3.82 0.97 -3.92 8.7e-05 2.0e-03 CCR8 1237
ENSG00000152192 6.95 -2.69 0.69 -3.92 8.9e-05 2.0e-03 POU4F1 5457
ENSG00000233673 24.19 -2.52 0.65 -3.90 9.6e-05 2.1e-03 ANAPC1P1 100286979
ENSG00000231752 6.93 -2.43 0.62 -3.90 9.6e-05 2.2e-03 EMBP1 647121
ENSG00000231682 2.83 -4.82 1.24 -3.90 9.8e-05 2.2e-03 LINC01891 105373934
ENSG00000238266 2.00 -4.79 1.24 -3.87 1.1e-04 2.4e-03 LINC00707 100507127
ENSG00000215644 24.88 -2.69 0.70 -3.86 1.1e-04 2.5e-03 GCGR 2642
ENSG00000102970 22.77 -3.52 0.91 -3.86 1.2e-04 2.5e-03 CCL17 6361
ENSG00000169245 334.62 -2.86 0.75 -3.83 1.3e-04 2.7e-03 CXCL10 3627
ENSG00000260802 9.70 -3.53 0.92 -3.83 1.3e-04 2.8e-03 SERTM2 401613
ENSG00000179840 4.32 -3.21 0.84 -3.82 1.3e-04 2.9e-03 PIK3CD-AS1 644997
ENSG00000114455 9.48 -2.13 0.56 -3.81 1.4e-04 3.0e-03 HHLA2 11148
ENSG00000263080 5.94 -2.61 0.69 -3.81 1.4e-04 3.0e-03 LOC105371083 105371083
ENSG00000109674 10.31 -2.27 0.60 -3.80 1.5e-04 3.1e-03 NEIL3 55247
ENSG00000146049 11.35 2.42 0.64 3.79 1.5e-04 3.2e-03 KAAG1 353219
ENSG00000150556 18.44 -2.40 0.63 -3.79 1.5e-04 3.2e-03 LYPD6B 130576
ENSG00000166603 2.76 -5.30 1.40 -3.79 1.5e-04 3.2e-03 MC4R 4160
ENSG00000160505 15.67 -3.76 1.00 -3.78 1.6e-04 3.4e-03 NLRP4 147945
ENSG00000166211 3.85 -4.64 1.23 -3.77 1.6e-04 3.4e-03 SPIC 121599
ENSG00000233093 25.46 -2.39 0.64 -3.75 1.8e-04 3.7e-03 LINC00892 100128420
ENSG00000231858 1.96 -3.00 0.81 -3.72 2.0e-04 4.1e-03 LOC105373805 105373805
ENSG00000255582 2.27 -4.44 1.20 -3.72 2.0e-04 4.1e-03 OR10G2 26534
ENSG00000181126 226.48 -2.09 0.56 -3.71 2.1e-04 4.2e-03 HLA-V 352962
ENSG00000228495 12.87 -2.59 0.70 -3.71 2.1e-04 4.3e-03 LINC01013 100507254
ENSG00000255221 1.65 -3.96 1.07 -3.70 2.1e-04 4.3e-03 CARD17 440068
ENSG00000241163 47.41 -2.79 0.75 -3.70 2.2e-04 4.4e-03 LINC00877 285286
ENSG00000125726 34.17 -2.72 0.74 -3.69 2.2e-04 4.4e-03 CD70 970
ENSG00000185972 11.61 2.51 0.68 3.69 2.3e-04 4.5e-03 CCIN 881
ENSG00000269720 9.15 -2.25 0.61 -3.69 2.3e-04 4.5e-03 CCDC194 110806280
ENSG00000272666 17.64 -2.62 0.72 -3.66 2.5e-04 4.9e-03 LOC105373098 105373098
ENSG00000179088 30.18 -3.61 0.99 -3.66 2.5e-04 5.0e-03 C12orf42 374470
ENSG00000226935 5.19 -2.79 0.76 -3.65 2.6e-04 5.0e-03 LINC00161 118421
ENSG00000152766 26.41 -2.38 0.65 -3.65 2.7e-04 5.2e-03 ANKRD22 118932
ENSG00000110680 74.69 3.45 0.95 3.64 2.8e-04 5.4e-03 CALCA 796
ENSG00000261760 8.02 2.32 0.64 3.63 2.8e-04 5.5e-03 LOC100507334 100507334
ENSG00000054803 35.24 2.56 0.70 3.63 2.8e-04 5.5e-03 CBLN4 140689
ENSG00000188848 78.97 -3.31 0.91 -3.62 2.9e-04 5.6e-03 BEND4 389206
ENSG00000133063 151.67 -2.04 0.56 -3.62 3.0e-04 5.7e-03 CHIT1 1118
ENSG00000223914 9.48 -4.56 1.26 -3.62 3.0e-04 5.7e-03 LINC02471 105369734
ENSG00000167618 5.97 -3.02 0.84 -3.61 3.0e-04 5.8e-03 LAIR2 3904
ENSG00000170786 15.44 -2.41 0.67 -3.60 3.2e-04 6.1e-03 SDR16C5 195814
ENSG00000170128 11.45 -2.14 0.60 -3.59 3.3e-04 6.2e-03 GPR25 2848
ENSG00000105251 7.38 -2.29 0.64 -3.59 3.3e-04 6.2e-03 SHD 56961
ENSG00000100079 38.13 -2.31 0.64 -3.59 3.3e-04 6.2e-03 LGALS2 3957
ENSG00000168078 36.21 -2.07 0.58 -3.59 3.4e-04 6.3e-03 PBK 55872
ENSG00000164265 8.02 -2.56 0.72 -3.58 3.5e-04 6.5e-03 SCGB3A2 117156
ENSG00000137868 91.86 -2.26 0.64 -3.52 4.4e-04 7.9e-03 STRA6 64220
ENSG00000078081 359.38 -2.11 0.60 -3.50 4.6e-04 8.2e-03 LAMP3 27074
ENSG00000197721 7.85 -2.56 0.73 -3.50 4.6e-04 8.2e-03 CR1L 1379
ENSG00000254126 5.04 -3.46 0.99 -3.49 4.8e-04 8.5e-03 CD8B2 927
ENSG00000224184 4.39 -3.18 0.92 -3.45 5.6e-04 9.6e-03 MIR3681HG 100506457
ENSG00000258512 19.70 -2.01 0.58 -3.45 5.6e-04 9.7e-03 LINC00239 145200
ENSG00000158402 13.54 -2.05 0.59 -3.44 5.8e-04 9.9e-03 CDC25C 995
ENSG00000141096 12.75 -2.01 0.58 -3.44 5.8e-04 9.9e-03 DPEP3 64180
ENSG00000104970 16.91 -2.51 0.73 -3.44 5.8e-04 1.0e-02 KIR3DX1 90011
ENSG00000267123 4.99 -2.43 0.71 -3.41 6.4e-04 1.1e-02 SCAT1 101928710
ENSG00000258525 8.96 -2.09 0.61 -3.41 6.5e-04 1.1e-02 LOC100506071 100506071
ENSG00000255772 2.18 -3.11 0.91 -3.41 6.6e-04 1.1e-02 LINC01479 101927922
ENSG00000104951 86.11 -2.08 0.62 -3.38 7.2e-04 1.2e-02 IL4I1 259307
ENSG00000121570 9.87 -2.10 0.62 -3.38 7.3e-04 1.2e-02 DPPA4 55211
ENSG00000212658 1.64 -4.08 1.21 -3.36 7.7e-04 1.3e-02 KRTAP29-1 100533177
ENSG00000165509 26.92 2.14 0.64 3.35 8.1e-04 1.3e-02 MAGEC3 139081
ENSG00000214336 1.32 -3.50 1.05 -3.34 8.4e-04 1.4e-02 FOXI3 344167
ENSG00000169035 24.78 2.23 0.67 3.33 8.7e-04 1.4e-02 KLK7 5650
ENSG00000124635 129.01 -2.28 0.69 -3.31 9.5e-04 1.5e-02 H2BC11 8970
ENSG00000230023 1.36 -3.44 1.05 -3.29 1.0e-03 1.6e-02 LINC02800 284632
ENSG00000144481 4.46 -3.27 0.99 -3.28 1.0e-03 1.6e-02 TRPM8 79054
ENSG00000258869 1.21 -4.12 1.25 -3.28 1.0e-03 1.6e-02 LINC02312 100132612
ENSG00000136244 352.73 2.50 0.77 3.27 1.1e-03 1.6e-02 IL6 3569
ENSG00000135248 11.80 2.25 0.69 3.27 1.1e-03 1.7e-02 FAM71F1 84691
ENSG00000187033 1.31 -3.52 1.08 -3.27 1.1e-03 1.7e-02 SAMD7 344658
ENSG00000237541 438.68 -2.95 0.90 -3.26 1.1e-03 1.7e-02 HLA-DQA1 3117
ENSG00000249993 5.95 -2.93 0.90 -3.24 1.2e-03 1.8e-02 BFSP2-AS1 85003
ENSG00000140835 20.12 -2.01 0.62 -3.24 1.2e-03 1.8e-02 CHST4 10164
ENSG00000158050 1402.26 -2.46 0.76 -3.24 1.2e-03 1.8e-02 DUSP2 1844
ENSG00000183395 3.02 -3.14 0.97 -3.23 1.2e-03 1.9e-02 PMCH 5367
ENSG00000255151 2.16 -4.92 1.53 -3.23 1.3e-03 1.9e-02 GLYATL1B 100287520
ENSG00000205057 2.70 -5.30 1.65 -3.21 1.3e-03 2.0e-02 CLLU1OS 574016
ENSG00000254521 16.19 -2.01 0.63 -3.19 1.4e-03 2.1e-02 SIGLEC12 89858
ENSG00000237372 2.31 -4.12 1.29 -3.19 1.4e-03 2.1e-02 UNQ6494 100129066
ENSG00000168594 2.96 -3.82 1.20 -3.18 1.5e-03 2.1e-02 ADAM29 11086
ENSG00000159516 2.32 3.23 1.03 3.15 1.6e-03 2.3e-02 SPRR2G 6706
ENSG00000111536 3.73 -3.02 0.96 -3.14 1.7e-03 2.3e-02 IL26 55801
ENSG00000233392 29.01 -2.34 0.75 -3.14 1.7e-03 2.4e-02 LOC200772 200772
ENSG00000116031 37.13 -2.50 0.80 -3.11 1.9e-03 2.6e-02 CD207 50489
ENSG00000124575 42.22 -2.83 0.91 -3.11 1.9e-03 2.6e-02 H1-3 3007
ENSG00000163501 96.72 2.65 0.85 3.10 1.9e-03 2.6e-02 IHH 3549
ENSG00000249534 3.17 2.54 0.82 3.09 2.0e-03 2.7e-02 LINC01258 101928776
ENSG00000138684 1.57 -4.14 1.34 -3.08 2.1e-03 2.8e-02 IL21 59067
ENSG00000130957 5.14 -2.27 0.74 -3.07 2.1e-03 2.8e-02 FBP2 8789
ENSG00000249667 1.64 -4.06 1.32 -3.07 2.1e-03 2.8e-02 LINC01259 106144599
ENSG00000133980 4.43 -3.23 1.05 -3.07 2.1e-03 2.9e-02 VRTN 55237
ENSG00000116014 6.12 -2.44 0.79 -3.07 2.2e-03 2.9e-02 KISS1R 84634
ENSG00000267593 1.37 -3.65 1.19 -3.06 2.2e-03 2.9e-02 LINC01926 105372147
ENSG00000124391 4.71 -2.37 0.77 -3.06 2.2e-03 2.9e-02 IL17C 27189
ENSG00000148123 1.49 3.28 1.07 3.06 2.2e-03 2.9e-02 PLPPR1 54886
ENSG00000185130 4.60 -2.84 0.93 -3.06 2.2e-03 2.9e-02 H2BC13 8340
ENSG00000267568 3.22 -2.60 0.85 -3.06 2.2e-03 2.9e-02 LOC105371899 105371899
ENSG00000173404 10.58 -2.66 0.87 -3.05 2.3e-03 3.0e-02 INSM1 3642
ENSG00000253214 2.27 -3.11 1.02 -3.05 2.3e-03 3.0e-02 LOC105375924 105375924
ENSG00000171643 10.08 -2.09 0.69 -3.05 2.3e-03 3.0e-02 S100Z 170591
ENSG00000092758 3756.11 2.13 0.70 3.04 2.4e-03 3.1e-02 COL9A3 1299
ENSG00000196890 19.23 -2.74 0.91 -3.03 2.5e-03 3.2e-02 H2BU1 128312
ENSG00000154165 59.57 -2.65 0.88 -3.02 2.5e-03 3.2e-02 GPR15 2838
ENSG00000128322 10.47 -2.10 0.70 -3.00 2.7e-03 3.4e-02 IGLL1 3543
ENSG00000230943 3.19 -3.58 1.20 -3.00 2.7e-03 3.4e-02 LINC02541 101927686
ENSG00000150275 13.55 -2.45 0.82 -2.99 2.8e-03 3.5e-02 PCDH15 65217
ENSG00000187848 33.72 -2.99 1.00 -2.99 2.8e-03 3.5e-02 P2RX2 22953
ENSG00000265929 1.00 -3.92 1.31 -2.99 2.8e-03 3.5e-02 MIR5195 100847062
ENSG00000247151 2.16 -2.90 0.97 -2.99 2.8e-03 3.5e-02 CSTF3-DT 338739
ENSG00000226397 2.11 -3.58 1.20 -2.98 2.9e-03 3.6e-02 C12orf77 196415
ENSG00000208024 2.71 2.06 0.69 2.97 3.0e-03 3.7e-02 MIR199A2 406977
ENSG00000197153 5.52 -2.56 0.87 -2.96 3.1e-03 3.7e-02 H3C12 8356
ENSG00000101292 2.26 -3.86 1.31 -2.96 3.1e-03 3.8e-02 PROKR2 128674
ENSG00000163121 5.59 -2.34 0.79 -2.95 3.1e-03 3.8e-02 NEURL3 93082
ENSG00000203814 172.27 -2.37 0.80 -2.95 3.2e-03 3.8e-02 H2BC18 440689
ENSG00000197888 9.89 -2.58 0.88 -2.94 3.3e-03 3.9e-02 UGT2B17 7367
ENSG00000164400 2.17 -3.70 1.26 -2.94 3.3e-03 4.0e-02 CSF2 1437
ENSG00000184357 4.57 -3.23 1.11 -2.91 3.6e-03 4.2e-02 H1-5 3009
ENSG00000105352 40.06 -2.10 0.72 -2.91 3.6e-03 4.2e-02 CEACAM4 1089
ENSG00000175514 3.17 -2.31 0.80 -2.89 3.9e-03 4.4e-02 GPR152 390212
ENSG00000185736 31.46 -2.17 0.75 -2.89 3.9e-03 4.4e-02 ADARB2 105
ENSG00000226807 7.26 2.29 0.79 2.89 3.9e-03 4.4e-02 MROH5 389690
ENSG00000231787 1.37 -3.44 1.20 -2.87 4.1e-03 4.6e-02 H2BP9 115482691
ENSG00000090402 1.65 4.03 1.41 2.87 4.1e-03 4.7e-02 SI 6476
ENSG00000139151 1.34 -2.97 1.04 -2.86 4.2e-03 4.7e-02 PLCZ1 89869
ENSG00000016490 3.87 2.20 0.77 2.86 4.2e-03 4.8e-02 CLCA1 1179
ENSG00000169248 73.15 -2.44 0.85 -2.86 4.2e-03 4.8e-02 CXCL11 6373
ENSG00000132437 9.84 2.53 0.89 2.84 4.5e-03 5.0e-02 DDC 1644
ENSG00000245928 1.96 -2.53 0.89 -2.83 4.6e-03 5.1e-02 LOC101928809 101928809
ENSG00000183822 3.41 -2.28 0.81 -2.83 4.7e-03 5.1e-02 NCF4-AS1 107985578
ENSG00000267522 1.81 2.63 0.93 2.81 4.9e-03 5.3e-02 LINC01864 101928886
ENSG00000135903 2.76 2.27 0.81 2.80 5.1e-03 5.4e-02 PAX3 5077
ENSG00000254415 110.45 -2.15 0.77 -2.80 5.1e-03 5.5e-02 SIGLEC14 100049587
ENSG00000138483 9.97 2.09 0.75 2.79 5.2e-03 5.6e-02 CCDC54 84692
ENSG00000207205 0.91 -2.71 0.97 -2.78 5.4e-03 5.7e-02 RNVU1-15 101954267
ENSG00000147256 4.77 2.12 0.76 2.78 5.4e-03 5.7e-02 ARHGAP36 158763
ENSG00000075461 19.72 2.12 0.77 2.77 5.5e-03 5.8e-02 CACNG4 27092
ENSG00000258483 2.19 -3.44 1.24 -2.77 5.6e-03 5.9e-02 LINC02251 105371008
ENSG00000176177 3.53 -2.64 0.95 -2.77 5.7e-03 5.9e-02 ENTHD1 150350
ENSG00000139223 1.35 3.42 1.24 2.76 5.9e-03 6.0e-02 ANP32D 23519
ENSG00000131142 6.76 -2.16 0.79 -2.74 6.1e-03 6.3e-02 CCL25 6370
ENSG00000234224 5.03 2.81 1.03 2.73 6.2e-03 6.3e-02 TMEM229A 730130
ENSG00000137270 5.81 -2.58 0.95 -2.73 6.4e-03 6.4e-02 GCM1 8521
ENSG00000251676 3.18 3.06 1.12 2.73 6.4e-03 6.4e-02 SNHG27 101927305
ENSG00000145451 4.39 -2.86 1.05 -2.72 6.6e-03 6.5e-02 GLRA3 8001
ENSG00000229921 2.58 -2.32 0.86 -2.70 6.8e-03 6.7e-02 KIF25-AS1 100505879
ENSG00000197978 3.23 2.52 0.93 2.70 6.9e-03 6.8e-02 GOLGA6L9 440295
ENSG00000196131 1.19 2.95 1.09 2.69 7.1e-03 6.9e-02 VN1R2 317701
ENSG00000189099 1.17 2.41 0.89 2.69 7.1e-03 6.9e-02 PRSS48 345062
ENSG00000147570 13.76 -2.33 0.86 -2.69 7.1e-03 6.9e-02 DNAJC5B 85479
ENSG00000249550 1.89 -3.38 1.26 -2.69 7.2e-03 7.0e-02 LINC01234 100506465
ENSG00000186844 1.39 3.03 1.13 2.68 7.3e-03 7.1e-02 LCE1A 353131
ENSG00000115602 1073.94 2.42 0.90 2.68 7.3e-03 7.1e-02 IL1RL1 9173
ENSG00000204033 2.20 -2.46 0.92 -2.68 7.4e-03 7.1e-02 LRIT2 340745
ENSG00000180613 1.49 -3.93 1.47 -2.68 7.4e-03 7.1e-02 GSX2 170825
ENSG00000137561 2.22 -2.12 0.80 -2.66 7.8e-03 7.4e-02 TTPA 7274
ENSG00000198685 0.88 2.90 1.10 2.64 8.3e-03 7.8e-02 LINC01565 23434
ENSG00000254233 1.27 -3.56 1.35 -2.63 8.4e-03 7.8e-02 LINC02365 105377586
ENSG00000106302 6.53 -2.51 0.95 -2.63 8.4e-03 7.8e-02 HYAL4 23553
ENSG00000086967 152.58 -2.00 0.77 -2.62 8.8e-03 8.1e-02 MYBPC2 4606
ENSG00000215182 8.42 2.27 0.87 2.62 8.9e-03 8.2e-02 MUC5AC 4586
ENSG00000226806 1.82 -4.81 1.85 -2.60 9.3e-03 8.4e-02 LCT-AS1 100507600
ENSG00000261645 1.22 -2.76 1.08 -2.57 1.0e-02 9.0e-02 DISC1FP1 101929222
ENSG00000218819 1.27 -4.02 1.57 -2.56 1.0e-02 9.0e-02 TDRD15 100129278
ENSG00000152592 4.89 2.01 0.79 2.55 1.1e-02 9.3e-02 DMP1 1758
ENSG00000173213 16.65 -2.07 0.81 -2.55 1.1e-02 9.3e-02 TUBB8B 260334
ENSG00000258499 1.04 -3.29 1.29 -2.55 1.1e-02 9.4e-02 LINC02287 101929002
ENSG00000233922 1.78 -2.15 0.84 -2.55 1.1e-02 9.4e-02 LINC01694 105372840
ENSG00000167941 6.06 2.03 0.80 2.54 1.1e-02 9.4e-02 SOST 50964
ENSG00000089225 237.40 2.36 0.93 2.54 1.1e-02 9.4e-02 TBX5 6910
ENSG00000152430 3.77 2.31 0.91 2.54 1.1e-02 9.5e-02 BOLL 66037
ENSG00000240403 3.80 -2.75 1.08 -2.54 1.1e-02 9.6e-02 KIR3DL2 3812
ENSG00000229425 2.40 -2.61 1.03 -2.53 1.1e-02 9.7e-02 LOC101927745 101927745
ENSG00000228016 2.31 -2.11 0.84 -2.53 1.2e-02 9.8e-02 RAPGEF4-AS1 91149



out of 46777 with nonzero total read count
adjusted p-value < 0.1
LFC > 0 (up)       : 952, 2%
LFC < 0 (down)     : 2862, 6.1%
outliers [1]       : 0, 0%
low counts [2]     : 14515, 31%
(mean count < 1)
[1] see 'cooksCutoff' argument of ?results
[2] see 'independentFiltering' argument of ?results


Tabla 8: toptable y tabla resumen que contienen tanto la lista como el resumen de los genes que presentan evidencia de estar diferencialmente expresados entre las condiciones NIT y ELI.


SFI vs ELI:


Finalmente, vamos a estudiar que diferencias existen entre la presencia de infilitraciones focales y la presencia de infiltraciones extensivas. Análogamente a las dos comparaciones anteriores, en la Tabla 9 podemos viusalizar la topTable con los genes diferencialmente expresados entre condiciones y la summaryTable con un resumen del número de genes sobrexpresados e infraexpresados. Observamos que -respecto a la aplcación de infiltraciones focales- la aplicación de infilitraciones extensivas en el tejido tiroideo (ELI) desencadena una respuesta que implica -por lo menos- la expresión diferencial de 3814 (8.1%). De estos genes, un 2% están sobrexpresados y un 6.1% infraexpresados.


baseMean log2FoldChange lfcSE stat pvalue padj symbol entrez
ENSG00000105369 1948.87 -4.90 0.80 -6.14 8.4e-10 4.6e-07 CD79A 973
ENSG00000170476 1628.40 -4.15 0.74 -5.61 2.0e-08 7.4e-06 MZB1 51237
ENSG00000156738 5112.78 -4.50 0.81 -5.54 3.0e-08 1.0e-05 MS4A1 931
ENSG00000181847 505.03 -3.02 0.55 -5.52 3.3e-08 1.1e-05 TIGIT 201633
ENSG00000156234 561.78 -4.44 0.83 -5.32 1.0e-07 3.0e-05 CXCL13 10563
ENSG00000110777 1986.24 -3.24 0.62 -5.19 2.1e-07 5.7e-05 POU2AF1 5450
ENSG00000226777 416.84 -3.91 0.76 -5.13 2.8e-07 7.5e-05 FAM30A 9834
ENSG00000132465 7603.68 -3.78 0.74 -5.09 3.6e-07 9.1e-05 JCHAIN 3512
ENSG00000129204 428.14 2.15 0.44 4.89 1.0e-06 2.4e-04 USP6 9098
ENSG00000187862 90.87 -2.94 0.60 -4.86 1.2e-06 2.7e-04 TTC24 164118
ENSG00000235304 36.49 -5.87 1.24 -4.74 2.1e-06 4.8e-04 LINC01281 286442
ENSG00000048462 108.47 -2.52 0.54 -4.68 2.8e-06 6.3e-04 TNFRSF17 608
ENSG00000163534 804.39 -3.53 0.76 -4.63 3.7e-06 8.2e-04 FCRL1 115350
ENSG00000160856 926.56 -3.03 0.66 -4.57 4.8e-06 1.0e-03 FCRL3 115352
ENSG00000177455 1184.57 -3.51 0.77 -4.56 5.1e-06 1.1e-03 CD19 930
ENSG00000254709 101.05 -4.44 0.98 -4.54 5.6e-06 1.1e-03 IGLL5 100423062
ENSG00000122188 236.81 -2.19 0.49 -4.51 6.6e-06 1.3e-03 LAX1 54900
ENSG00000235532 73.30 -4.17 0.93 -4.51 6.6e-06 1.3e-03 LINC00402 100507612
ENSG00000026751 787.52 -2.25 0.50 -4.49 7.2e-06 1.4e-03 SLAMF7 57823
ENSG00000197057 177.97 -2.42 0.54 -4.45 8.5e-06 1.7e-03 DTHD1 401124
ENSG00000086967 152.58 -3.35 0.76 -4.38 1.2e-05 2.3e-03 MYBPC2 4606
ENSG00000136573 911.22 -2.90 0.66 -4.38 1.2e-05 2.3e-03 BLK 640
ENSG00000083454 913.26 -2.62 0.60 -4.37 1.2e-05 2.3e-03 P2RX5 5026
ENSG00000140465 120.99 -3.68 0.84 -4.36 1.3e-05 2.4e-03 CYP1A1 1543
ENSG00000089012 258.32 -2.24 0.51 -4.36 1.3e-05 2.4e-03 SIRPG 55423
ENSG00000121895 207.04 -2.60 0.60 -4.32 1.5e-05 2.8e-03 TMEM156 80008
ENSG00000196092 398.98 -3.43 0.80 -4.31 1.6e-05 2.8e-03 PAX5 5079
ENSG00000159958 162.27 -3.54 0.82 -4.30 1.7e-05 3.0e-03 TNFRSF13C 115650
ENSG00000122224 497.02 -2.47 0.58 -4.28 1.8e-05 3.2e-03 LY9 4063
ENSG00000143297 1671.07 -3.42 0.80 -4.27 2.0e-05 3.4e-03 FCRL5 83416
ENSG00000113088 259.07 -2.48 0.58 -4.26 2.0e-05 3.4e-03 GZMK 3003
ENSG00000116748 50.56 -2.34 0.55 -4.24 2.2e-05 3.7e-03 AMPD1 270
ENSG00000198576 199.58 2.48 0.59 4.18 2.9e-05 4.7e-03 ARC 23237
ENSG00000086159 5.21 2.72 0.66 4.13 3.6e-05 5.6e-03 AQP6 363
ENSG00000138755 1841.40 -2.50 0.61 -4.13 3.6e-05 5.7e-03 CXCL9 4283
ENSG00000168081 68.51 -2.60 0.64 -4.07 4.7e-05 7.1e-03 PNOC 5368
ENSG00000092345 4.26 4.26 1.07 3.97 7.0e-05 1.0e-02 DAZL 1618
ENSG00000257242 72.86 -2.07 0.52 -3.96 7.5e-05 1.1e-02 LINC01619 256021
ENSG00000240505 194.19 -4.25 1.08 -3.92 8.7e-05 1.2e-02 TNFRSF13B 23495
ENSG00000131096 18.83 2.26 0.58 3.91 9.2e-05 1.3e-02 PYY 5697
ENSG00000165076 9.47 2.28 0.59 3.89 1.0e-04 1.4e-02 PRSS37 136242
ENSG00000225362 35.25 2.07 0.54 3.85 1.2e-04 1.6e-02 CT62 196993
ENSG00000183918 263.35 -2.09 0.54 -3.85 1.2e-04 1.6e-02 SH2D1A 4068
ENSG00000255760 66.56 -4.18 1.09 -3.84 1.2e-04 1.6e-02 LINC02422 105369723
ENSG00000269404 416.45 -2.45 0.64 -3.82 1.3e-04 1.8e-02 SPIB 6689
ENSG00000171903 519.64 -2.20 0.58 -3.80 1.5e-04 1.9e-02 CYP4F11 57834
ENSG00000234184 32.14 -4.48 1.18 -3.79 1.5e-04 2.0e-02 LINC01781 101927412
ENSG00000178562 397.88 -2.24 0.60 -3.76 1.7e-04 2.1e-02 CD28 940
ENSG00000136931 7.75 2.98 0.80 3.73 1.9e-04 2.4e-02 NR5A1 2516
ENSG00000158477 22.99 -3.95 1.07 -3.70 2.2e-04 2.7e-02 CD1A 909
ENSG00000137673 23.60 -2.89 0.78 -3.69 2.2e-04 2.7e-02 MMP7 4316
ENSG00000135248 11.80 2.57 0.70 3.68 2.3e-04 2.8e-02 FAM71F1 84691
ENSG00000102970 22.77 -3.33 0.91 -3.65 2.6e-04 3.1e-02 CCL17 6361
ENSG00000049249 22.64 -2.35 0.65 -3.64 2.8e-04 3.3e-02 TNFRSF9 3604
ENSG00000249923 7.03 2.03 0.56 3.62 3.0e-04 3.5e-02 LOC284865 284865
ENSG00000255733 55.44 -2.68 0.75 -3.55 3.9e-04 4.4e-02 IFNG-AS1 100885789
ENSG00000185972 11.61 2.40 0.68 3.52 4.2e-04 4.7e-02 CCIN 881
ENSG00000163599 420.70 -2.19 0.63 -3.49 4.9e-04 5.4e-02 CTLA4 1493
ENSG00000254211 7.61 -2.54 0.73 -3.47 5.2e-04 5.6e-02 LINC01485 101928154
ENSG00000078589 193.96 -2.04 0.59 -3.47 5.3e-04 5.7e-02 P2RY10 27334
ENSG00000234572 10.73 -3.91 1.14 -3.44 5.8e-04 6.0e-02 LINC01800 101927438
ENSG00000163508 258.50 -2.01 0.58 -3.44 5.9e-04 6.1e-02 EOMES 8320
ENSG00000169245 334.62 -2.56 0.75 -3.43 6.1e-04 6.3e-02 CXCL10 3627
ENSG00000159556 10.15 -2.90 0.85 -3.40 6.7e-04 6.8e-02 ISL2 64843
ENSG00000256574 14.46 -3.47 1.02 -3.39 6.9e-04 6.9e-02 OR13A1 79290
ENSG00000231439 54.87 2.28 0.68 3.34 8.3e-04 8.0e-02 WASIR2 100132169
ENSG00000144460 7.44 -3.25 0.98 -3.33 8.6e-04 8.2e-02 NYAP2 57624
ENSG00000100721 310.88 -3.08 0.93 -3.30 9.6e-04 8.9e-02 TCL1A 8115
ENSG00000204595 1.65 3.59 1.09 3.29 9.9e-04 9.2e-02 DPRX 503834
ENSG00000185155 28.43 -2.44 0.75 -3.27 1.1e-03 9.9e-02 MIXL1 83881



out of 46777 with nonzero total read count
adjusted p-value < 0.1
LFC > 0 (up)       : 1292, 2.8%
LFC < 0 (down)     : 2843, 6.1%
outliers [1]       : 0, 0%
low counts [2]     : 17235, 37%
(mean count < 2)
[1] see 'cooksCutoff' argument of ?results
[2] see 'independentFiltering' argument of ?results


Tabla 9: toptable y tabla resumen que contienen tanto la lista como el resumen de los genes que presentan evidencia de estar diferencialmente expresados entre las condiciones SFI y ELI.


Las tablas de genes diferencialmente expresados (conocidas también como topTables) tienen la misma debilidad y el mismo punto fuerte: contienen demasiada información. Una alternativa más visual para identificar cuan diferencialmente expresados están los genes de cada comparación es mediante el uso de volcano plots. A continuación se muestran los volcano plots para cada una de las 3 comparaciones (Figura 3). Para facilitar su interpretación se han añadido una línea horizontal con el fdr cutoff (FDR = 0.1), dos líneas verticales con los foldChange cutoffs (FC = -2, 2) y una leyenda de colores (NS = gris, log2FC = verde, p-value = azul, p-value & log2FC = rojo).


En línea con lo observado en las topTables y las summaryTables, los volcano plots parecen indicar que las comparaciones que presentan una mayor variación en su expresión son NITvsELI y SFIvsELI. Visto de otro modo, esto sugiere que la aplicación de infiltraciones focales no tiene un efecto demasiado significativo respecto al control. Estos resultados secundan el patrón que observamos en el PCA plot de los datos normalizados (Figura 1).



Figura 3: volcano plots resultantes de las comparaciones entre los grupos NIT, SFI (A), NIT y ELI (B) y SFI y ELI (C). Se consideran diferencialmente expresados los genes que corresponden a los puntos de color rojo.


Análisis de significación


Aunque ya conocemos que genes están sobrexpresados o infraexpresados en cada de las comparaciones, es difícil extraer conclusiones a partir de esta información. Con el objetivo de obtener una visión más general e identificar que vías metabólicas se ven modificadas por la presencia y grado de infiltraciones en el tejido tiroideo, podemos realizar un análisis de significación o de pathways. Este tipo de análisis permiten clasificar y agrupar los genes diferencialmente expresados dentro de las vías metabólicas en las que participan. A continuación se muestra, para cada dieta, una tabla que contiene los resultados de este análisis (Tablas 10-12).


NIT vs SFI:


Description GeneRatio BgRatio pvalue p.adjust qvalue
GO:0042113 B cell activation 12/54 310/18670 6.5e-11 6.6e-08 4.9e-08
GO:0042100 B cell proliferation 8/54 95/18670 2.9e-10 1.4e-07 1.1e-07
GO:0050853 B cell receptor signaling pathway 8/54 129/18670 3.3e-09 1.1e-06 8.4e-07
GO:0006959 humoral immune response 11/54 356/18670 4.8e-09 1.2e-06 9.0e-07
GO:0050851 antigen receptor-mediated signaling pathway 10/54 316/18670 2.1e-08 4.2e-06 3.1e-06
GO:0050864 regulation of B cell activation 8/54 184/18670 5.4e-08 9.1e-06 6.8e-06
GO:0046651 lymphocyte proliferation 9/54 272/18670 7.8e-08 1.0e-05 7.8e-06
GO:0032943 mononuclear cell proliferation 9/54 274/18670 8.3e-08 1.0e-05 7.8e-06
GO:0051249 regulation of lymphocyte activation 11/54 485/18670 1.1e-07 1.3e-05 9.5e-06
GO:0070661 leukocyte proliferation 9/54 298/18670 1.7e-07 1.7e-05 1.3e-05
GO:0002429 immune response-activating cell surface receptor signaling pathway 10/54 473/18670 8.7e-07 7.4e-05 5.5e-05
GO:0030888 regulation of B cell proliferation 5/54 61/18670 8.8e-07 7.4e-05 5.5e-05
GO:0050855 regulation of B cell receptor signaling pathway 4/54 29/18670 1.4e-06 1.1e-04 8.2e-05
GO:0030098 lymphocyte differentiation 8/54 353/18670 7.4e-06 5.3e-04 4.0e-04
GO:0010524 positive regulation of calcium ion transport into cytosol 4/54 54/18670 1.8e-05 1.2e-03 8.9e-04
GO:0050670 regulation of lymphocyte proliferation 6/54 208/18670 2.9e-05 1.8e-03 1.3e-03
GO:0032944 regulation of mononuclear cell proliferation 6/54 209/18670 3.0e-05 1.8e-03 1.3e-03
GO:0007204 positive regulation of cytosolic calcium ion concentration 7/54 319/18670 3.5e-05 2.0e-03 1.5e-03
GO:0050854 regulation of antigen receptor-mediated signaling pathway 4/54 65/18670 3.7e-05 2.0e-03 1.5e-03
GO:0070663 regulation of leukocyte proliferation 6/54 222/18670 4.2e-05 2.1e-03 1.6e-03
GO:0042110 T cell activation 8/54 464/18670 5.2e-05 2.5e-03 1.9e-03
GO:0051480 regulation of cytosolic calcium ion concentration 7/54 357/18670 7.2e-05 3.3e-03 2.5e-03
GO:0002460 adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains 7/54 361/18670 7.7e-05 3.4e-03 2.5e-03
GO:0060402 calcium ion transport into cytosol 5/54 158/18670 9.2e-05 3.9e-03 2.9e-03
GO:0070098 chemokine-mediated signaling pathway 4/54 88/18670 1.2e-04 4.9e-03 3.7e-03
GO:0060401 cytosolic calcium ion transport 5/54 171/18670 1.3e-04 5.2e-03 3.9e-03
GO:0022407 regulation of cell-cell adhesion 7/54 403/18670 1.5e-04 5.7e-03 4.3e-03
GO:1990868 response to chemokine 4/54 97/18670 1.8e-04 6.2e-03 4.6e-03
GO:1990869 cellular response to chemokine 4/54 97/18670 1.8e-04 6.2e-03 4.6e-03
GO:0071356 cellular response to tumor necrosis factor 6/54 291/18670 1.9e-04 6.3e-03 4.7e-03
GO:0051281 positive regulation of release of sequestered calcium ion into cytosol 3/54 40/18670 2.1e-04 6.8e-03 5.1e-03
GO:0010522 regulation of calcium ion transport into cytosol 4/54 102/18670 2.2e-04 6.8e-03 5.1e-03
GO:0030593 neutrophil chemotaxis 4/54 104/18670 2.3e-04 7.1e-03 5.3e-03
GO:1903037 regulation of leukocyte cell-cell adhesion 6/54 304/18670 2.4e-04 7.1e-03 5.3e-03
GO:0034612 response to tumor necrosis factor 6/54 312/18670 2.7e-04 7.9e-03 5.9e-03
GO:0050863 regulation of T cell activation 6/54 314/18670 2.8e-04 7.9e-03 5.9e-03
GO:0006874 cellular calcium ion homeostasis 7/54 458/18670 3.3e-04 9.1e-03 6.8e-03
GO:1990266 neutrophil migration 4/54 118/18670 3.8e-04 1.0e-02 7.4e-03
GO:0051251 positive regulation of lymphocyte activation 6/54 334/18670 3.9e-04 1.0e-02 7.4e-03
GO:0055074 calcium ion homeostasis 7/54 471/18670 4.0e-04 1.0e-02 7.4e-03
GO:0007159 leukocyte cell-cell adhesion 6/54 337/18670 4.1e-04 1.0e-02 7.5e-03
GO:0019730 antimicrobial humoral response 4/54 122/18670 4.3e-04 1.0e-02 7.5e-03
GO:0051928 positive regulation of calcium ion transport 4/54 123/18670 4.4e-04 1.0e-02 7.5e-03
GO:0071621 granulocyte chemotaxis 4/54 123/18670 4.4e-04 1.0e-02 7.5e-03
GO:0045661 regulation of myoblast differentiation 3/54 53/18670 4.8e-04 1.1e-02 8.1e-03
GO:0002449 lymphocyte mediated immunity 6/54 352/18670 5.2e-04 1.1e-02 8.3e-03
GO:0072503 cellular divalent inorganic cation homeostasis 7/54 493/18670 5.2e-04 1.1e-02 8.3e-03
GO:0030183 B cell differentiation 4/54 131/18670 5.6e-04 1.2e-02 8.7e-03
GO:0031295 T cell costimulation 3/54 56/18670 5.7e-04 1.2e-02 8.7e-03
GO:0031294 lymphocyte costimulation 3/54 57/18670 6.0e-04 1.2e-02 9.0e-03
GO:0097530 granulocyte migration 4/54 141/18670 7.4e-04 1.4e-02 1.0e-02
GO:0050871 positive regulation of B cell activation 4/54 142/18670 7.6e-04 1.4e-02 1.0e-02
GO:0002260 lymphocyte homeostasis 3/54 62/18670 7.7e-04 1.4e-02 1.0e-02
GO:0002696 positive regulation of leukocyte activation 6/54 380/18670 7.7e-04 1.4e-02 1.0e-02
GO:1904064 positive regulation of cation transmembrane transport 4/54 144/18670 8.0e-04 1.4e-02 1.0e-02
GO:0002637 regulation of immunoglobulin production 3/54 63/18670 8.0e-04 1.4e-02 1.0e-02
GO:0051924 regulation of calcium ion transport 5/54 254/18670 8.2e-04 1.4e-02 1.0e-02
GO:0022409 positive regulation of cell-cell adhesion 5/54 255/18670 8.4e-04 1.4e-02 1.0e-02
GO:0051250 negative regulation of lymphocyte activation 4/54 146/18670 8.4e-04 1.4e-02 1.0e-02
GO:0048247 lymphocyte chemotaxis 3/54 64/18670 8.4e-04 1.4e-02 1.0e-02
GO:0002467 germinal center formation 2/54 15/18670 8.4e-04 1.4e-02 1.0e-02
GO:0050867 positive regulation of cell activation 6/54 394/18670 9.3e-04 1.5e-02 1.1e-02
GO:0030889 negative regulation of B cell proliferation 2/54 16/18670 9.6e-04 1.5e-02 1.1e-02
GO:2000243 positive regulation of reproductive process 3/54 69/18670 1.0e-03 1.7e-02 1.2e-02
GO:0034767 positive regulation of ion transmembrane transport 4/54 156/18670 1.1e-03 1.7e-02 1.2e-02
GO:0010819 regulation of T cell chemotaxis 2/54 17/18670 1.1e-03 1.7e-02 1.2e-02
GO:1904427 positive regulation of calcium ion transmembrane transport 3/54 71/18670 1.1e-03 1.7e-02 1.3e-02
GO:0043270 positive regulation of ion transport 5/54 275/18670 1.2e-03 1.7e-02 1.3e-02
GO:0061844 antimicrobial humoral immune response mediated by antimicrobial peptide 3/54 73/18670 1.2e-03 1.8e-02 1.3e-02
GO:0033209 tumor necrosis factor-mediated signaling pathway 4/54 167/18670 1.4e-03 2.0e-02 1.5e-02
GO:0007492 endoderm development 3/54 76/18670 1.4e-03 2.0e-02 1.5e-02
GO:0006816 calcium ion transport 6/54 434/18670 1.5e-03 2.2e-02 1.6e-02
GO:0002695 negative regulation of leukocyte activation 4/54 175/18670 1.6e-03 2.2e-02 1.7e-02
GO:0035590 purinergic nucleotide receptor signaling pathway 2/54 21/18670 1.7e-03 2.2e-02 1.7e-02
GO:1901739 regulation of myoblast fusion 2/54 21/18670 1.7e-03 2.2e-02 1.7e-02
GO:0051279 regulation of release of sequestered calcium ion into cytosol 3/54 82/18670 1.7e-03 2.3e-02 1.7e-02
GO:0033622 integrin activation 2/54 22/18670 1.8e-03 2.4e-02 1.8e-02
GO:0045445 myoblast differentiation 3/54 84/18670 1.8e-03 2.4e-02 1.8e-02
GO:0002285 lymphocyte activation involved in immune response 4/54 181/18670 1.9e-03 2.4e-02 1.8e-02
GO:0001776 leukocyte homeostasis 3/54 86/18670 2.0e-03 2.5e-02 1.9e-02
GO:0002697 regulation of immune effector process 6/54 458/18670 2.0e-03 2.5e-02 1.9e-02
GO:0002683 negative regulation of immune system process 6/54 463/18670 2.1e-03 2.6e-02 2.0e-02
GO:0002377 immunoglobulin production 4/54 193/18670 2.3e-03 2.8e-02 2.1e-02
GO:0032461 positive regulation of protein oligomerization 2/54 25/18670 2.4e-03 2.8e-02 2.1e-02
GO:0045662 negative regulation of myoblast differentiation 2/54 25/18670 2.4e-03 2.8e-02 2.1e-02
GO:0050866 negative regulation of cell activation 4/54 199/18670 2.6e-03 3.0e-02 2.3e-02
GO:0070838 divalent metal ion transport 6/54 483/18670 2.6e-03 3.0e-02 2.3e-02
GO:1901623 regulation of lymphocyte chemotaxis 2/54 27/18670 2.8e-03 3.1e-02 2.3e-02
GO:0050870 positive regulation of T cell activation 4/54 202/18670 2.8e-03 3.1e-02 2.3e-02
GO:0072511 divalent inorganic cation transport 6/54 489/18670 2.8e-03 3.1e-02 2.3e-02
GO:0034764 positive regulation of transmembrane transport 4/54 204/18670 2.9e-03 3.2e-02 2.4e-02
GO:0010818 T cell chemotaxis 2/54 28/18670 3.0e-03 3.3e-02 2.4e-02
GO:0002824 positive regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains 3/54 100/18670 3.0e-03 3.3e-02 2.5e-02
GO:0050900 leukocyte migration 6/54 499/18670 3.1e-03 3.3e-02 2.5e-02
GO:0097529 myeloid leukocyte migration 4/54 210/18670 3.2e-03 3.3e-02 2.5e-02
GO:0060142 regulation of syncytium formation by plasma membrane fusion 2/54 29/18670 3.2e-03 3.3e-02 2.5e-02
GO:0001782 B cell homeostasis 2/54 30/18670 3.4e-03 3.5e-02 2.6e-02
GO:0050869 negative regulation of B cell activation 2/54 30/18670 3.4e-03 3.5e-02 2.6e-02
GO:0002708 positive regulation of lymphocyte mediated immunity 3/54 105/18670 3.5e-03 3.5e-02 2.6e-02
GO:0002821 positive regulation of adaptive immune response 3/54 105/18670 3.5e-03 3.5e-02 2.6e-02
GO:0002699 positive regulation of immune effector process 4/54 216/18670 3.5e-03 3.5e-02 2.6e-02
GO:2000406 positive regulation of T cell migration 2/54 31/18670 3.6e-03 3.6e-02 2.7e-02
GO:1903039 positive regulation of leukocyte cell-cell adhesion 4/54 218/18670 3.6e-03 3.6e-02 2.7e-02
GO:0001909 leukocyte mediated cytotoxicity 3/54 107/18670 3.7e-03 3.6e-02 2.7e-02
GO:0035587 purinergic receptor signaling pathway 2/54 32/18670 3.9e-03 3.7e-02 2.7e-02
GO:0045589 regulation of regulatory T cell differentiation 2/54 32/18670 3.9e-03 3.7e-02 2.7e-02
GO:0030595 leukocyte chemotaxis 4/54 224/18670 4.0e-03 3.8e-02 2.8e-02
GO:0072676 lymphocyte migration 3/54 111/18670 4.1e-03 3.8e-02 2.8e-02
GO:0050868 negative regulation of T cell activation 3/54 112/18670 4.2e-03 3.9e-02 2.9e-02
GO:0045066 regulatory T cell differentiation 2/54 34/18670 4.3e-03 4.0e-02 3.0e-02
GO:0032733 positive regulation of interleukin-10 production 2/54 36/18670 4.9e-03 4.4e-02 3.3e-02
GO:0030217 T cell differentiation 4/54 240/18670 5.1e-03 4.6e-02 3.4e-02
GO:2000403 positive regulation of lymphocyte migration 2/54 37/18670 5.1e-03 4.6e-02 3.4e-02
GO:0010959 regulation of metal ion transport 5/54 394/18670 5.5e-03 4.9e-02 3.6e-02
GO:0051209 release of sequestered calcium ion into cytosol 3/54 124/18670 5.5e-03 4.9e-02 3.6e-02


Tabla 10: GOtable que contiene las vías metabólicas expresadas diferencialmente entre los grupos NIT y SFI.


NIT vs ELI:


Description GeneRatio BgRatio pvalue p.adjust qvalue
GO:0042110 T cell activation 94/547 464/18670 3.6e-52 1.4e-48 1.2e-48
GO:0030098 lymphocyte differentiation 75/547 353/18670 4.9e-43 9.9e-40 8.1e-40
GO:0030217 T cell differentiation 58/547 240/18670 1.2e-36 1.7e-33 1.4e-33
GO:0051249 regulation of lymphocyte activation 78/547 485/18670 1.2e-35 1.1e-32 9.0e-33
GO:0050863 regulation of T cell activation 64/547 314/18670 1.4e-35 1.1e-32 9.0e-33
GO:0007159 leukocyte cell-cell adhesion 64/547 337/18670 1.1e-33 7.6e-31 6.3e-31
GO:1903037 regulation of leukocyte cell-cell adhesion 59/547 304/18670 1.3e-31 7.4e-29 6.1e-29
GO:1903039 positive regulation of leukocyte cell-cell adhesion 49/547 218/18670 1.8e-29 8.9e-27 7.3e-27
GO:0022407 regulation of cell-cell adhesion 63/547 403/18670 4.0e-28 1.8e-25 1.5e-25
GO:0050870 positive regulation of T cell activation 46/547 202/18670 5.4e-28 2.2e-25 1.8e-25
GO:0022409 positive regulation of cell-cell adhesion 50/547 255/18670 4.0e-27 1.5e-24 1.2e-24
GO:0046651 lymphocyte proliferation 50/547 272/18670 9.1e-26 3.1e-23 2.5e-23
GO:0070661 leukocyte proliferation 52/547 298/18670 1.2e-25 3.7e-23 3.1e-23
GO:0032943 mononuclear cell proliferation 50/547 274/18670 1.3e-25 3.7e-23 3.1e-23
GO:0002696 positive regulation of leukocyte activation 58/547 380/18670 2.1e-25 5.6e-23 4.6e-23
GO:0050867 positive regulation of cell activation 59/547 394/18670 2.2e-25 5.6e-23 4.6e-23
GO:0051251 positive regulation of lymphocyte activation 54/547 334/18670 6.2e-25 1.5e-22 1.2e-22
GO:0002449 lymphocyte mediated immunity 54/547 352/18670 8.4e-24 1.9e-21 1.5e-21
GO:0050670 regulation of lymphocyte proliferation 41/547 208/18670 1.7e-22 3.5e-20 2.9e-20
GO:0032944 regulation of mononuclear cell proliferation 41/547 209/18670 2.0e-22 4.0e-20 3.3e-20
GO:0070663 regulation of leukocyte proliferation 42/547 222/18670 2.6e-22 5.1e-20 4.2e-20
GO:0046631 alpha-beta T cell activation 34/547 138/18670 3.6e-22 6.7e-20 5.5e-20
GO:0045058 T cell selection 22/547 47/18670 9.2e-22 1.6e-19 1.3e-19
GO:0042113 B cell activation 48/547 310/18670 2.0e-21 3.3e-19 2.7e-19
GO:0045785 positive regulation of cell adhesion 54/547 403/18670 5.7e-21 9.1e-19 7.5e-19
GO:0050851 antigen receptor-mediated signaling pathway 47/547 316/18670 2.9e-20 4.5e-18 3.7e-18
GO:0045619 regulation of lymphocyte differentiation 35/547 169/18670 4.1e-20 5.9e-18 4.8e-18
GO:0002460 adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains 50/547 361/18670 4.1e-20 5.9e-18 4.8e-18
GO:0050900 leukocyte migration 59/547 499/18670 4.2e-20 5.9e-18 4.9e-18
GO:0043368 positive T cell selection 18/547 34/18670 2.7e-19 3.7e-17 3.0e-17
GO:0002429 immune response-activating cell surface receptor signaling pathway 56/547 473/18670 3.8e-19 5.0e-17 4.1e-17
GO:0002706 regulation of lymphocyte mediated immunity 32/547 149/18670 5.4e-19 6.8e-17 5.6e-17
GO:0046632 alpha-beta T cell differentiation 27/547 101/18670 7.4e-19 9.1e-17 7.5e-17
GO:0042129 regulation of T cell proliferation 32/547 156/18670 2.3e-18 2.7e-16 2.2e-16
GO:0002699 positive regulation of immune effector process 37/547 216/18670 2.9e-18 3.3e-16 2.7e-16
GO:1902105 regulation of leukocyte differentiation 41/547 272/18670 5.0e-18 5.6e-16 4.6e-16
GO:0045580 regulation of T cell differentiation 30/547 139/18670 5.9e-18 6.5e-16 5.3e-16
GO:0002697 regulation of immune effector process 53/547 458/18670 9.9e-18 1.1e-15 8.7e-16
GO:0002703 regulation of leukocyte mediated immunity 35/547 201/18670 1.4e-17 1.4e-15 1.2e-15
GO:0042102 positive regulation of T cell proliferation 25/547 95/18670 2.2e-17 2.3e-15 1.9e-15
GO:0042098 T cell proliferation 33/547 184/18670 4.8e-17 4.7e-15 3.9e-15
GO:0001819 positive regulation of cytokine production 52/547 464/18670 8.1e-17 7.8e-15 6.4e-15
GO:0002285 lymphocyte activation involved in immune response 32/547 181/18670 2.2e-16 2.1e-14 1.7e-14
GO:0002708 positive regulation of lymphocyte mediated immunity 25/547 105/18670 3.0e-16 2.7e-14 2.3e-14
GO:0070665 positive regulation of leukocyte proliferation 28/547 139/18670 5.2e-16 4.6e-14 3.8e-14
GO:0050671 positive regulation of lymphocyte proliferation 27/547 130/18670 7.7e-16 6.8e-14 5.6e-14
GO:0031295 T cell costimulation 19/547 56/18670 8.4e-16 7.3e-14 6.0e-14
GO:0032946 positive regulation of mononuclear cell proliferation 27/547 131/18670 9.5e-16 8.0e-14 6.5e-14
GO:0031294 lymphocyte costimulation 19/547 57/18670 1.2e-15 1.0e-13 8.4e-14
GO:0002683 negative regulation of immune system process 50/547 463/18670 1.5e-15 1.2e-13 9.9e-14
GO:0042100 B cell proliferation 23/547 95/18670 3.2e-15 2.5e-13 2.1e-13
GO:0033077 T cell differentiation in thymus 20/547 70/18670 6.4e-15 5.0e-13 4.1e-13
GO:0032609 interferon-gamma production 24/547 113/18670 1.9e-14 1.4e-12 1.2e-12
GO:0002819 regulation of adaptive immune response 28/547 160/18670 2.3e-14 1.7e-12 1.4e-12
GO:0031341 regulation of cell killing 22/547 98/18670 6.9e-14 5.0e-12 4.2e-12
GO:0002705 positive regulation of leukocyte mediated immunity 25/547 133/18670 1.0e-13 7.5e-12 6.1e-12
GO:0072676 lymphocyte migration 23/547 111/18670 1.2e-13 8.2e-12 6.7e-12
GO:0050852 T cell receptor signaling pathway 30/547 202/18670 2.4e-13 1.7e-11 1.4e-11
GO:0043367 CD4-positive, alpha-beta T cell differentiation 19/547 74/18670 2.6e-13 1.8e-11 1.5e-11
GO:0001909 leukocyte mediated cytotoxicity 22/547 107/18670 4.7e-13 3.2e-11 2.6e-11
GO:0031343 positive regulation of cell killing 18/547 68/18670 6.3e-13 4.2e-11 3.4e-11
GO:0001910 regulation of leukocyte mediated cytotoxicity 19/547 78/18670 7.3e-13 4.8e-11 3.9e-11
GO:0002822 regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains 25/547 145/18670 8.0e-13 5.1e-11 4.2e-11
GO:0007204 positive regulation of cytosolic calcium ion concentration 37/547 319/18670 9.6e-13 6.1e-11 5.0e-11
GO:1903706 regulation of hemopoiesis 46/547 475/18670 1.1e-12 7.0e-11 5.7e-11
GO:0032649 regulation of interferon-gamma production 21/547 101/18670 1.3e-12 7.8e-11 6.4e-11
GO:0046634 regulation of alpha-beta T cell activation 20/547 93/18670 2.2e-12 1.4e-10 1.1e-10
GO:0045061 thymic T cell selection 11/547 21/18670 3.3e-12 2.0e-10 1.6e-10
GO:0001912 positive regulation of leukocyte mediated cytotoxicity 16/547 56/18670 3.3e-12 2.0e-10 1.6e-10
GO:0001906 cell killing 26/547 168/18670 3.7e-12 2.1e-10 1.7e-10
GO:0030595 leukocyte chemotaxis 30/547 224/18670 3.7e-12 2.1e-10 1.7e-10
GO:1990868 response to chemokine 20/547 97/18670 5.2e-12 2.9e-10 2.3e-10
GO:1990869 cellular response to chemokine 20/547 97/18670 5.2e-12 2.9e-10 2.3e-10
GO:0051480 regulation of cytosolic calcium ion concentration 38/547 357/18670 6.7e-12 3.6e-10 3.0e-10
GO:0070098 chemokine-mediated signaling pathway 19/547 88/18670 7.4e-12 4.0e-10 3.3e-10
GO:0002695 negative regulation of leukocyte activation 26/547 175/18670 9.6e-12 5.1e-10 4.2e-10
GO:0035710 CD4-positive, alpha-beta T cell activation 19/547 92/18670 1.7e-11 9.0e-10 7.4e-10
GO:0046635 positive regulation of alpha-beta T cell activation 16/547 62/18670 1.9e-11 9.7e-10 7.9e-10
GO:0002440 production of molecular mediator of immune response 33/547 286/18670 1.9e-11 9.9e-10 8.1e-10
GO:0060326 cell chemotaxis 34/547 304/18670 2.3e-11 1.1e-09 9.4e-10
GO:0002821 positive regulation of adaptive immune response 20/547 105/18670 2.4e-11 1.2e-09 9.8e-10
GO:0045621 positive regulation of lymphocyte differentiation 19/547 94/18670 2.5e-11 1.3e-09 1.0e-09
GO:0002286 T cell activation involved in immune response 20/547 106/18670 2.9e-11 1.4e-09 1.2e-09
GO:1902107 positive regulation of leukocyte differentiation 23/547 144/18670 3.4e-11 1.6e-09 1.3e-09
GO:0032729 positive regulation of interferon-gamma production 16/547 65/18670 4.1e-11 1.9e-09 1.6e-09
GO:0042108 positive regulation of cytokine biosynthetic process 16/547 67/18670 6.7e-11 3.1e-09 2.6e-09
GO:0002824 positive regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains 19/547 100/18670 7.9e-11 3.7e-09 3.0e-09
GO:0002377 immunoglobulin production 26/547 193/18670 9.0e-11 4.2e-09 3.4e-09
GO:0042035 regulation of cytokine biosynthetic process 20/547 114/18670 1.1e-10 5.2e-09 4.3e-09
GO:0055074 calcium ion homeostasis 42/547 471/18670 1.5e-10 6.9e-09 5.7e-09
GO:0050853 B cell receptor signaling pathway 21/547 129/18670 1.7e-10 7.4e-09 6.0e-09
GO:0002287 alpha-beta T cell activation involved in immune response 15/547 61/18670 1.7e-10 7.4e-09 6.0e-09
GO:0002293 alpha-beta T cell differentiation involved in immune response 15/547 61/18670 1.7e-10 7.4e-09 6.0e-09
GO:0050866 negative regulation of cell activation 26/547 199/18670 1.8e-10 7.7e-09 6.4e-09
GO:0002456 T cell mediated immunity 19/547 106/18670 2.3e-10 9.6e-09 7.9e-09
GO:0006874 cellular calcium ion homeostasis 41/547 458/18670 2.3e-10 9.6e-09 7.9e-09
GO:0043383 negative T cell selection 8/547 12/18670 2.3e-10 9.6e-09 7.9e-09
GO:0043373 CD4-positive, alpha-beta T cell lineage commitment 9/547 17/18670 2.9e-10 1.2e-08 1.0e-08
GO:0002228 natural killer cell mediated immunity 15/547 64/18670 3.5e-10 1.4e-08 1.2e-08
GO:0050854 regulation of antigen receptor-mediated signaling pathway 15/547 65/18670 4.5e-10 1.8e-08 1.5e-08
GO:0072678 T cell migration 15/547 65/18670 4.5e-10 1.8e-08 1.5e-08
GO:0042089 cytokine biosynthetic process 20/547 123/18670 4.7e-10 1.9e-08 1.5e-08
GO:0042107 cytokine metabolic process 20/547 124/18670 5.5e-10 2.1e-08 1.8e-08
GO:0002292 T cell differentiation involved in immune response 15/547 68/18670 8.8e-10 3.4e-08 2.8e-08
GO:0050864 regulation of B cell activation 24/547 184/18670 9.4e-10 3.6e-08 3.0e-08
GO:0002363 alpha-beta T cell lineage commitment 9/547 19/18670 1.1e-09 4.0e-08 3.3e-08
GO:0002294 CD4-positive, alpha-beta T cell differentiation involved in immune response 14/547 60/18670 1.5e-09 5.5e-08 4.5e-08
GO:0030183 B cell differentiation 20/547 131/18670 1.5e-09 5.5e-08 4.6e-08
GO:0002360 T cell lineage commitment 10/547 26/18670 1.5e-09 5.5e-08 4.6e-08
GO:0030888 regulation of B cell proliferation 14/547 61/18670 1.8e-09 6.8e-08 5.6e-08
GO:0043369 CD4-positive or CD8-positive, alpha-beta T cell lineage commitment 9/547 20/18670 1.9e-09 6.8e-08 5.6e-08
GO:0045582 positive regulation of T cell differentiation 16/547 83/18670 2.0e-09 7.2e-08 5.9e-08
GO:0072503 cellular divalent inorganic cation homeostasis 41/547 493/18670 2.1e-09 7.4e-08 6.1e-08
GO:0002237 response to molecule of bacterial origin 33/547 343/18670 2.3e-09 8.1e-08 6.7e-08
GO:0046637 regulation of alpha-beta T cell differentiation 14/547 63/18670 2.9e-09 1.0e-07 8.4e-08
GO:0006968 cellular defense response 13/547 53/18670 2.9e-09 1.0e-07 8.4e-08
GO:0032496 response to lipopolysaccharide 32/547 330/18670 3.3e-09 1.1e-07 9.4e-08
GO:0071219 cellular response to molecule of bacterial origin 25/547 212/18670 3.5e-09 1.2e-07 9.9e-08
GO:0002700 regulation of production of molecular mediator of immune response 20/547 139/18670 4.3e-09 1.5e-07 1.2e-07
GO:0045060 negative thymic T cell selection 7/547 11/18670 5.3e-09 1.8e-07 1.5e-07
GO:1903708 positive regulation of hemopoiesis 23/547 185/18670 5.4e-09 1.8e-07 1.5e-07
GO:0002295 T-helper cell lineage commitment 8/547 16/18670 5.4e-09 1.8e-07 1.5e-07
GO:0002715 regulation of natural killer cell mediated immunity 12/547 46/18670 5.6e-09 1.8e-07 1.5e-07
GO:0002381 immunoglobulin production involved in immunoglobulin mediated immune response 13/547 56/18670 6.1e-09 2.0e-07 1.6e-07
GO:0019722 calcium-mediated signaling 25/547 218/18670 6.3e-09 2.0e-07 1.7e-07
GO:0043370 regulation of CD4-positive, alpha-beta T cell differentiation 12/547 47/18670 7.3e-09 2.3e-07 1.9e-07
GO:0071216 cellular response to biotic stimulus 26/547 236/18670 7.3e-09 2.3e-07 1.9e-07
GO:0019724 B cell mediated immunity 25/547 221/18670 8.3e-09 2.6e-07 2.2e-07
GO:0071222 cellular response to lipopolysaccharide 24/547 205/18670 8.4e-09 2.6e-07 2.2e-07
GO:0042093 T-helper cell differentiation 13/547 58/18670 9.6e-09 3.0e-07 2.5e-07
GO:0051250 negative regulation of lymphocyte activation 20/547 146/18670 1.0e-08 3.1e-07 2.6e-07
GO:0072540 T-helper 17 cell lineage commitment 7/547 12/18670 1.2e-08 3.8e-07 3.1e-07
GO:0002709 regulation of T cell mediated immunity 14/547 70/18670 1.2e-08 3.8e-07 3.1e-07
GO:0042267 natural killer cell mediated cytotoxicity 13/547 60/18670 1.5e-08 4.5e-07 3.7e-07
GO:0002685 regulation of leukocyte migration 23/547 196/18670 1.6e-08 4.9e-07 4.0e-07
GO:0006959 humoral immune response 32/547 356/18670 2.1e-08 6.2e-07 5.1e-07
GO:0045059 positive thymic T cell selection 7/547 13/18670 2.6e-08 7.7e-07 6.4e-07
GO:0032103 positive regulation of response to external stimulus 30/547 323/18670 2.8e-08 8.1e-07 6.7e-07
GO:0045076 regulation of interleukin-2 biosynthetic process 8/547 19/18670 2.9e-08 8.5e-07 7.0e-07
GO:0019932 second-messenger-mediated signaling 36/547 439/18670 2.9e-08 8.5e-07 7.0e-07
GO:0042269 regulation of natural killer cell mediated cytotoxicity 11/547 44/18670 3.9e-08 1.1e-06 9.3e-07
GO:0045088 regulation of innate immune response 36/547 452/18670 6.1e-08 1.7e-06 1.4e-06
GO:0001773 myeloid dendritic cell activation 9/547 28/18670 6.3e-08 1.8e-06 1.5e-06
GO:0046638 positive regulation of alpha-beta T cell differentiation 11/547 47/18670 8.3e-08 2.3e-06 1.9e-06
GO:0042094 interleukin-2 biosynthetic process 8/547 22/18670 1.1e-07 3.2e-06 2.6e-06
GO:0016064 immunoglobulin mediated immune response 23/547 218/18670 1.2e-07 3.3e-06 2.7e-06
GO:0045954 positive regulation of natural killer cell mediated cytotoxicity 9/547 30/18670 1.2e-07 3.4e-06 2.8e-06
GO:2000514 regulation of CD4-positive, alpha-beta T cell activation 12/547 61/18670 1.7e-07 4.6e-06 3.7e-06
GO:0002312 B cell activation involved in immune response 13/547 73/18670 1.8e-07 4.8e-06 3.9e-06
GO:0001776 leukocyte homeostasis 14/547 86/18670 1.9e-07 5.1e-06 4.2e-06
GO:0032623 interleukin-2 production 12/547 62/18670 2.0e-07 5.4e-06 4.4e-06
GO:1903038 negative regulation of leukocyte cell-cell adhesion 17/547 129/18670 2.3e-07 6.1e-06 5.0e-06
GO:0002637 regulation of immunoglobulin production 12/547 63/18670 2.4e-07 6.4e-06 5.3e-06
GO:0050857 positive regulation of antigen receptor-mediated signaling pathway 8/547 24/18670 2.5e-07 6.6e-06 5.4e-06
GO:0002717 positive regulation of natural killer cell mediated immunity 9/547 33/18670 3.1e-07 7.9e-06 6.5e-06
GO:0032633 interleukin-4 production 9/547 33/18670 3.1e-07 7.9e-06 6.5e-06
GO:0050727 regulation of inflammatory response 36/547 485/18670 3.5e-07 8.9e-06 7.4e-06
GO:1990266 neutrophil migration 16/547 118/18670 3.5e-07 8.9e-06 7.4e-06
GO:0030593 neutrophil chemotaxis 15/547 104/18670 3.6e-07 9.1e-06 7.5e-06
GO:0050901 leukocyte tethering or rolling 8/547 25/18670 3.6e-07 9.1e-06 7.5e-06
GO:0032655 regulation of interleukin-12 production 11/547 54/18670 3.8e-07 9.4e-06 7.7e-06
GO:0032663 regulation of interleukin-2 production 11/547 54/18670 3.8e-07 9.4e-06 7.7e-06
GO:0022408 negative regulation of cell-cell adhesion 20/547 181/18670 3.8e-07 9.4e-06 7.7e-06
GO:0045066 regulatory T cell differentiation 9/547 34/18670 4.1e-07 1.0e-05 8.2e-06
GO:0050777 negative regulation of immune response 18/547 150/18670 4.2e-07 1.0e-05 8.6e-06
GO:0072539 T-helper 17 cell differentiation 8/547 26/18670 5.1e-07 1.2e-05 1.0e-05
GO:0032615 interleukin-12 production 11/547 56/18670 5.6e-07 1.3e-05 1.1e-05
GO:0045086 positive regulation of interleukin-2 biosynthetic process 6/547 13/18670 8.9e-07 2.1e-05 1.8e-05
GO:0050868 negative regulation of T cell activation 15/547 112/18670 9.5e-07 2.3e-05 1.9e-05
GO:0097529 myeloid leukocyte migration 21/547 210/18670 1.0e-06 2.4e-05 2.0e-05
GO:0002687 positive regulation of leukocyte migration 16/547 128/18670 1.1e-06 2.5e-05 2.1e-05
GO:0002688 regulation of leukocyte chemotaxis 15/547 114/18670 1.2e-06 2.8e-05 2.3e-05
GO:0002704 negative regulation of leukocyte mediated immunity 10/547 49/18670 1.3e-06 2.9e-05 2.4e-05
GO:0050855 regulation of B cell receptor signaling pathway 8/547 29/18670 1.3e-06 3.0e-05 2.4e-05
GO:0072538 T-helper 17 type immune response 8/547 29/18670 1.3e-06 3.0e-05 2.4e-05
GO:1903555 regulation of tumor necrosis factor superfamily cytokine production 18/547 163/18670 1.5e-06 3.3e-05 2.7e-05
GO:0046629 gamma-delta T cell activation 6/547 14/18670 1.5e-06 3.5e-05 2.8e-05
GO:0002260 lymphocyte homeostasis 11/547 62/18670 1.6e-06 3.6e-05 3.0e-05
GO:0002562 somatic diversification of immune receptors via germline recombination within a single locus 11/547 62/18670 1.6e-06 3.6e-05 3.0e-05
GO:0016444 somatic cell DNA recombination 11/547 62/18670 1.6e-06 3.6e-05 3.0e-05
GO:0032743 positive regulation of interleukin-2 production 8/547 30/18670 1.7e-06 3.8e-05 3.1e-05
GO:0043372 positive regulation of CD4-positive, alpha-beta T cell differentiation 8/547 30/18670 1.7e-06 3.8e-05 3.1e-05
GO:0002200 somatic diversification of immune receptors 12/547 75/18670 1.7e-06 3.8e-05 3.1e-05
GO:0002712 regulation of B cell mediated immunity 10/547 51/18670 1.9e-06 4.0e-05 3.3e-05
GO:0002889 regulation of immunoglobulin mediated immune response 10/547 51/18670 1.9e-06 4.0e-05 3.3e-05
GO:0034612 response to tumor necrosis factor 26/547 312/18670 1.9e-06 4.0e-05 3.3e-05
GO:2000401 regulation of lymphocyte migration 11/547 63/18670 1.9e-06 4.1e-05 3.4e-05
GO:0033209 tumor necrosis factor-mediated signaling pathway 18/547 167/18670 2.1e-06 4.5e-05 3.7e-05
GO:0048247 lymphocyte chemotaxis 11/547 64/18670 2.2e-06 4.8e-05 3.9e-05
GO:0071706 tumor necrosis factor superfamily cytokine production 18/547 168/18670 2.3e-06 4.8e-05 3.9e-05
GO:0001818 negative regulation of cytokine production 25/547 296/18670 2.3e-06 4.9e-05 4.0e-05
GO:0050663 cytokine secretion 22/547 240/18670 2.5e-06 5.2e-05 4.3e-05
GO:0050729 positive regulation of inflammatory response 17/547 153/18670 2.6e-06 5.5e-05 4.5e-05
GO:0097028 dendritic cell differentiation 9/547 42/18670 2.8e-06 5.8e-05 4.8e-05
GO:0032753 positive regulation of interleukin-4 production 7/547 23/18670 2.9e-06 6.0e-05 5.0e-05
GO:0045089 positive regulation of innate immune response 29/547 381/18670 3.0e-06 6.1e-05 5.0e-05
GO:0000819 sister chromatid segregation 19/547 189/18670 3.1e-06 6.3e-05 5.2e-05
GO:0007059 chromosome segregation 26/547 321/18670 3.1e-06 6.4e-05 5.3e-05
GO:0071621 granulocyte chemotaxis 15/547 123/18670 3.2e-06 6.4e-05 5.3e-05
GO:0140014 mitotic nuclear division 23/547 264/18670 3.5e-06 7.0e-05 5.8e-05
GO:0001914 regulation of T cell mediated cytotoxicity 8/547 33/18670 3.8e-06 7.5e-05 6.2e-05
GO:0000280 nuclear division 30/547 407/18670 3.8e-06 7.7e-05 6.3e-05
GO:0097530 granulocyte migration 16/547 141/18670 3.9e-06 7.7e-05 6.4e-05
GO:0033081 regulation of T cell differentiation in thymus 7/547 24/18670 4.0e-06 7.9e-05 6.5e-05
GO:0060402 calcium ion transport into cytosol 17/547 158/18670 4.1e-06 8.0e-05 6.6e-05
GO:2000404 regulation of T cell migration 9/547 44/18670 4.2e-06 8.3e-05 6.8e-05
GO:0032680 regulation of tumor necrosis factor production 17/547 160/18670 4.8e-06 9.4e-05 7.7e-05
GO:0006816 calcium ion transport 31/547 434/18670 5.0e-06 9.8e-05 8.1e-05
GO:0002820 negative regulation of adaptive immune response 9/547 45/18670 5.2e-06 1.0e-04 8.2e-05
GO:0071356 cellular response to tumor necrosis factor 24/547 291/18670 5.5e-06 1.1e-04 8.7e-05
GO:0006310 DNA recombination 24/547 292/18670 5.9e-06 1.1e-04 9.2e-05
GO:0002701 negative regulation of production of molecular mediator of immune response 8/547 35/18670 6.0e-06 1.1e-04 9.4e-05
GO:0045622 regulation of T-helper cell differentiation 8/547 35/18670 6.0e-06 1.1e-04 9.4e-05
GO:0032640 tumor necrosis factor production 17/547 163/18670 6.2e-06 1.2e-04 9.6e-05
GO:0002437 inflammatory response to antigenic stimulus 9/547 46/18670 6.2e-06 1.2e-04 9.6e-05
GO:0002204 somatic recombination of immunoglobulin genes involved in immune response 9/547 47/18670 7.5e-06 1.4e-04 1.1e-04
GO:0002208 somatic diversification of immunoglobulins involved in immune response 9/547 47/18670 7.5e-06 1.4e-04 1.1e-04
GO:0045190 isotype switching 9/547 47/18670 7.5e-06 1.4e-04 1.1e-04
GO:0030101 natural killer cell activation 12/547 86/18670 7.5e-06 1.4e-04 1.1e-04
GO:2000516 positive regulation of CD4-positive, alpha-beta T cell activation 8/547 36/18670 7.6e-06 1.4e-04 1.1e-04
GO:0002923 regulation of humoral immune response mediated by circulating immunoglobulin 5/547 11/18670 8.5e-06 1.5e-04 1.3e-04
GO:0033089 positive regulation of T cell differentiation in thymus 5/547 11/18670 8.5e-06 1.5e-04 1.3e-04
GO:0002690 positive regulation of leukocyte chemotaxis 12/547 87/18670 8.5e-06 1.5e-04 1.3e-04
GO:0002711 positive regulation of T cell mediated immunity 9/547 48/18670 9.0e-06 1.6e-04 1.3e-04
GO:0002714 positive regulation of B cell mediated immunity 8/547 37/18670 9.4e-06 1.7e-04 1.4e-04
GO:0002891 positive regulation of immunoglobulin mediated immune response 8/547 37/18670 9.4e-06 1.7e-04 1.4e-04
GO:0000070 mitotic sister chromatid segregation 16/547 151/18670 9.5e-06 1.7e-04 1.4e-04
GO:0032673 regulation of interleukin-4 production 7/547 27/18670 9.5e-06 1.7e-04 1.4e-04
GO:0034113 heterotypic cell-cell adhesion 10/547 61/18670 1.0e-05 1.8e-04 1.5e-04
GO:0045123 cellular extravasation 10/547 61/18670 1.0e-05 1.8e-04 1.5e-04
GO:0001913 T cell mediated cytotoxicity 9/547 49/18670 1.1e-05 1.9e-04 1.5e-04
GO:0071887 leukocyte apoptotic process 13/547 104/18670 1.1e-05 1.9e-04 1.6e-04
GO:0060401 cytosolic calcium ion transport 17/547 171/18670 1.2e-05 2.0e-04 1.7e-04
GO:0002922 positive regulation of humoral immune response 6/547 19/18670 1.2e-05 2.1e-04 1.7e-04
GO:0046641 positive regulation of alpha-beta T cell proliferation 6/547 19/18670 1.2e-05 2.1e-04 1.7e-04
GO:0071674 mononuclear cell migration 12/547 90/18670 1.2e-05 2.1e-04 1.7e-04
GO:0045577 regulation of B cell differentiation 7/547 28/18670 1.2e-05 2.1e-04 1.7e-04
GO:0048872 homeostasis of number of cells 21/547 246/18670 1.3e-05 2.1e-04 1.8e-04
GO:0002863 positive regulation of inflammatory response to antigenic stimulus 5/547 12/18670 1.4e-05 2.4e-04 2.0e-04
GO:0007162 negative regulation of cell adhesion 23/547 289/18670 1.5e-05 2.6e-04 2.1e-04
GO:0016445 somatic diversification of immunoglobulins 10/547 64/18670 1.6e-05 2.6e-04 2.2e-04
GO:0045165 cell fate commitment 22/547 270/18670 1.6e-05 2.7e-04 2.2e-04
GO:0051209 release of sequestered calcium ion into cytosol 14/547 124/18670 1.6e-05 2.7e-04 2.2e-04
GO:0070838 divalent metal ion transport 32/547 483/18670 1.6e-05 2.7e-04 2.2e-04
GO:0002823 negative regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains 8/547 40/18670 1.7e-05 2.9e-04 2.4e-04
GO:0016447 somatic recombination of immunoglobulin gene segments 9/547 52/18670 1.8e-05 2.9e-04 2.4e-04
GO:0002548 monocyte chemotaxis 10/547 65/18670 1.8e-05 3.0e-04 2.4e-04
GO:0050871 positive regulation of B cell activation 15/547 142/18670 1.9e-05 3.0e-04 2.5e-04
GO:0051283 negative regulation of sequestering of calcium ion 14/547 126/18670 2.0e-05 3.2e-04 2.6e-04
GO:0050869 negative regulation of B cell activation 7/547 30/18670 2.0e-05 3.3e-04 2.7e-04
GO:0072511 divalent inorganic cation transport 32/547 489/18670 2.1e-05 3.4e-04 2.8e-04
GO:0051282 regulation of sequestering of calcium ion 14/547 128/18670 2.4e-05 3.8e-04 3.1e-04
GO:0048285 organelle fission 30/547 449/18670 2.6e-05 4.1e-04 3.4e-04
GO:2000106 regulation of leukocyte apoptotic process 11/547 83/18670 3.0e-05 4.7e-04 3.9e-04
GO:0051208 sequestering of calcium ion 14/547 131/18670 3.1e-05 4.9e-04 4.0e-04
GO:0048305 immunoglobulin secretion 6/547 22/18670 3.1e-05 4.9e-04 4.0e-04
GO:0045589 regulation of regulatory T cell differentiation 7/547 32/18670 3.2e-05 5.0e-04 4.1e-04
GO:0098813 nuclear chromosome segregation 21/547 262/18670 3.2e-05 5.0e-04 4.2e-04
GO:0002718 regulation of cytokine production involved in immune response 11/547 84/18670 3.3e-05 5.2e-04 4.3e-04
GO:0043374 CD8-positive, alpha-beta T cell differentiation 5/547 14/18670 3.4e-05 5.3e-04 4.3e-04
GO:0050862 positive regulation of T cell receptor signaling pathway 5/547 14/18670 3.4e-05 5.3e-04 4.3e-04
GO:0061756 leukocyte adhesion to vascular endothelial cell 8/547 44/18670 3.6e-05 5.6e-04 4.6e-04
GO:0046633 alpha-beta T cell proliferation 7/547 33/18670 3.9e-05 6.0e-04 5.0e-04
GO:0036037 CD8-positive, alpha-beta T cell activation 6/547 23/18670 4.1e-05 6.2e-04 5.1e-04
GO:0050921 positive regulation of chemotaxis 14/547 135/18670 4.3e-05 6.6e-04 5.4e-04
GO:0002532 production of molecular mediator involved in inflammatory response 10/547 72/18670 4.5e-05 6.8e-04 5.6e-04
GO:0032660 regulation of interleukin-17 production 7/547 34/18670 4.8e-05 7.3e-04 6.0e-04
GO:0050707 regulation of cytokine secretion 18/547 210/18670 4.9e-05 7.4e-04 6.1e-04
GO:0032945 negative regulation of mononuclear cell proliferation 10/547 73/18670 5.1e-05 7.6e-04 6.2e-04
GO:0050672 negative regulation of lymphocyte proliferation 10/547 73/18670 5.1e-05 7.6e-04 6.2e-04
GO:0002698 negative regulation of immune effector process 13/547 120/18670 5.1e-05 7.6e-04 6.2e-04
GO:0002407 dendritic cell chemotaxis 6/547 24/18670 5.3e-05 7.8e-04 6.4e-04
GO:0002861 regulation of inflammatory response to antigenic stimulus 6/547 24/18670 5.3e-05 7.8e-04 6.4e-04
GO:2000107 negative regulation of leukocyte apoptotic process 8/547 47/18670 5.9e-05 8.7e-04 7.2e-04
GO:0097553 calcium ion transmembrane import into cytosol 14/547 140/18670 6.4e-05 9.4e-04 7.8e-04
GO:0070374 positive regulation of ERK1 and ERK2 cascade 18/547 215/18670 6.7e-05 9.7e-04 8.0e-04
GO:0002507 tolerance induction 6/547 25/18670 6.8e-05 9.8e-04 8.1e-04
GO:0002719 negative regulation of cytokine production involved in immune response 6/547 25/18670 6.8e-05 9.8e-04 8.1e-04
GO:0032695 negative regulation of interleukin-12 production 5/547 16/18670 7.1e-05 1.0e-03 8.4e-04
GO:0050920 regulation of chemotaxis 18/547 217/18670 7.5e-05 1.1e-03 8.9e-04
GO:0045453 bone resorption 9/547 62/18670 7.6e-05 1.1e-03 9.0e-04
GO:1904894 positive regulation of STAT cascade 11/547 92/18670 7.8e-05 1.1e-03 9.2e-04
GO:0043029 T cell homeostasis 7/547 37/18670 8.6e-05 1.2e-03 1.0e-03
GO:0045730 respiratory burst 7/547 37/18670 8.6e-05 1.2e-03 1.0e-03
GO:0001916 positive regulation of T cell mediated cytotoxicity 6/547 26/18670 8.6e-05 1.2e-03 1.0e-03
GO:0070664 negative regulation of leukocyte proliferation 10/547 78/18670 9.0e-05 1.3e-03 1.0e-03
GO:0006909 phagocytosis 25/547 369/18670 9.7e-05 1.4e-03 1.1e-03
GO:0048535 lymph node development 5/547 17/18670 9.8e-05 1.4e-03 1.1e-03
GO:1904892 regulation of STAT cascade 14/547 146/18670 1.0e-04 1.4e-03 1.2e-03
GO:0002707 negative regulation of lymphocyte mediated immunity 7/547 38/18670 1.0e-04 1.4e-03 1.2e-03
GO:0032620 interleukin-17 production 7/547 38/18670 1.0e-04 1.4e-03 1.2e-03
GO:0002702 positive regulation of production of molecular mediator of immune response 11/547 95/18670 1.0e-04 1.4e-03 1.2e-03
GO:0036336 dendritic cell migration 6/547 27/18670 1.1e-04 1.5e-03 1.2e-03
GO:0097696 STAT cascade 15/547 166/18670 1.1e-04 1.6e-03 1.3e-03
GO:0050856 regulation of T cell receptor signaling pathway 7/547 39/18670 1.2e-04 1.7e-03 1.4e-03
GO:0032653 regulation of interleukin-10 production 8/547 52/18670 1.2e-04 1.7e-03 1.4e-03
GO:0043011 myeloid dendritic cell differentiation 5/547 18/18670 1.3e-04 1.8e-03 1.5e-03
GO:0001768 establishment of T cell polarity 4/547 10/18670 1.3e-04 1.8e-03 1.5e-03
GO:0010818 T cell chemotaxis 6/547 28/18670 1.3e-04 1.8e-03 1.5e-03
GO:0006323 DNA packaging 17/547 210/18670 1.6e-04 2.1e-03 1.8e-03
GO:0030890 positive regulation of B cell proliferation 7/547 41/18670 1.7e-04 2.3e-03 1.9e-03
GO:0002710 negative regulation of T cell mediated immunity 5/547 19/18670 1.8e-04 2.3e-03 1.9e-03
GO:0000018 regulation of DNA recombination 11/547 101/18670 1.8e-04 2.4e-03 2.0e-03
GO:0032613 interleukin-10 production 8/547 55/18670 1.9e-04 2.5e-03 2.0e-03
GO:0018108 peptidyl-tyrosine phosphorylation 24/547 363/18670 1.9e-04 2.5e-03 2.1e-03
GO:0002639 positive regulation of immunoglobulin production 7/547 42/18670 2.0e-04 2.6e-03 2.1e-03
GO:0050766 positive regulation of phagocytosis 9/547 70/18670 2.0e-04 2.6e-03 2.1e-03
GO:0046425 regulation of JAK-STAT cascade 13/547 137/18670 2.0e-04 2.6e-03 2.1e-03
GO:0002367 cytokine production involved in immune response 11/547 102/18670 2.0e-04 2.6e-03 2.1e-03
GO:0046640 regulation of alpha-beta T cell proliferation 6/547 30/18670 2.0e-04 2.6e-03 2.1e-03
GO:0001767 establishment of lymphocyte polarity 4/547 11/18670 2.0e-04 2.6e-03 2.2e-03
GO:0002517 T cell tolerance induction 4/547 11/18670 2.0e-04 2.6e-03 2.2e-03
GO:0007259 JAK-STAT cascade 14/547 156/18670 2.1e-04 2.6e-03 2.2e-03
GO:0007260 tyrosine phosphorylation of STAT protein 10/547 86/18670 2.1e-04 2.7e-03 2.2e-03
GO:0018212 peptidyl-tyrosine modification 24/547 366/18670 2.2e-04 2.8e-03 2.3e-03
GO:0051897 positive regulation of protein kinase B signaling 15/547 176/18670 2.2e-04 2.8e-03 2.3e-03
GO:0002577 regulation of antigen processing and presentation 5/547 20/18670 2.3e-04 2.9e-03 2.4e-03
GO:0002675 positive regulation of acute inflammatory response 6/547 31/18670 2.4e-04 3.1e-03 2.5e-03
GO:0051482 positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G protein-coupled signaling pathway 6/547 31/18670 2.4e-04 3.1e-03 2.5e-03
GO:2000406 positive regulation of T cell migration 6/547 31/18670 2.4e-04 3.1e-03 2.5e-03
GO:1903557 positive regulation of tumor necrosis factor superfamily cytokine production 10/547 88/18670 2.5e-04 3.1e-03 2.6e-03
GO:0034341 response to interferon-gamma 16/547 199/18670 2.6e-04 3.3e-03 2.7e-03
GO:0046427 positive regulation of JAK-STAT cascade 10/547 89/18670 2.7e-04 3.4e-03 2.8e-03
GO:0071103 DNA conformation change 22/547 327/18670 2.7e-04 3.4e-03 2.8e-03
GO:0071346 cellular response to interferon-gamma 15/547 180/18670 2.8e-04 3.5e-03 2.8e-03
GO:0071353 cellular response to interleukin-4 6/547 32/18670 2.9e-04 3.6e-03 3.0e-03
GO:0035590 purinergic nucleotide receptor signaling pathway 5/547 21/18670 2.9e-04 3.6e-03 3.0e-03
GO:0045579 positive regulation of B cell differentiation 4/547 12/18670 3.0e-04 3.7e-03 3.0e-03
GO:0048302 regulation of isotype switching to IgG isotypes 4/547 12/18670 3.0e-04 3.7e-03 3.0e-03
GO:0045581 negative regulation of T cell differentiation 7/547 45/18670 3.1e-04 3.8e-03 3.1e-03
GO:0002573 myeloid leukocyte differentiation 16/547 204/18670 3.5e-04 4.3e-03 3.5e-03
GO:0033622 integrin activation 5/547 22/18670 3.7e-04 4.5e-03 3.7e-03
GO:0072643 interferon-gamma secretion 5/547 22/18670 3.7e-04 4.5e-03 3.7e-03
GO:2001251 negative regulation of chromosome organization 13/547 146/18670 3.7e-04 4.5e-03 3.7e-03
GO:0031334 positive regulation of protein complex assembly 19/547 268/18670 3.7e-04 4.5e-03 3.7e-03
GO:0019882 antigen processing and presentation 17/547 226/18670 3.8e-04 4.5e-03 3.7e-03
GO:0043547 positive regulation of GTPase activity 25/547 405/18670 4.0e-04 4.8e-03 4.0e-03
GO:0030261 chromosome condensation 7/547 47/18670 4.1e-04 4.8e-03 4.0e-03
GO:0070670 response to interleukin-4 6/547 34/18670 4.1e-04 4.9e-03 4.0e-03
GO:0033623 regulation of integrin activation 4/547 13/18670 4.2e-04 5.0e-03 4.1e-03
GO:0048291 isotype switching to IgG isotypes 4/547 13/18670 4.2e-04 5.0e-03 4.1e-03
GO:1902713 regulation of interferon-gamma secretion 4/547 13/18670 4.2e-04 5.0e-03 4.1e-03
GO:0043087 regulation of GTPase activity 28/547 479/18670 4.4e-04 5.2e-03 4.3e-03
GO:0001774 microglial cell activation 7/547 48/18670 4.6e-04 5.4e-03 4.5e-03
GO:0002269 leukocyte activation involved in inflammatory response 7/547 48/18670 4.6e-04 5.4e-03 4.5e-03
GO:0032735 positive regulation of interleukin-12 production 6/547 35/18670 4.8e-04 5.7e-03 4.7e-03
GO:0002534 cytokine production involved in inflammatory response 7/547 49/18670 5.3e-04 6.1e-03 5.0e-03
GO:0045670 regulation of osteoclast differentiation 8/547 64/18670 5.4e-04 6.2e-03 5.1e-03
GO:0046579 positive regulation of Ras protein signal transduction 8/547 64/18670 5.4e-04 6.2e-03 5.1e-03
GO:0042832 defense response to protozoan 5/547 24/18670 5.7e-04 6.5e-03 5.4e-03
GO:0046639 negative regulation of alpha-beta T cell differentiation 5/547 24/18670 5.7e-04 6.5e-03 5.4e-03
GO:0090023 positive regulation of neutrophil chemotaxis 5/547 24/18670 5.7e-04 6.5e-03 5.4e-03
GO:0001771 immunological synapse formation 4/547 14/18670 5.8e-04 6.6e-03 5.4e-03
GO:0050848 regulation of calcium-mediated signaling 10/547 98/18670 6.0e-04 6.8e-03 5.6e-03
GO:2000403 positive regulation of lymphocyte migration 6/547 37/18670 6.6e-04 7.5e-03 6.2e-03
GO:0009615 response to virus 21/547 326/18670 6.6e-04 7.5e-03 6.2e-03
GO:0001562 response to protozoan 5/547 25/18670 6.9e-04 7.8e-03 6.4e-03
GO:0042509 regulation of tyrosine phosphorylation of STAT protein 9/547 83/18670 7.1e-04 8.0e-03 6.6e-03
GO:0051260 protein homooligomerization 22/547 351/18670 7.2e-04 8.1e-03 6.6e-03
GO:0032611 interleukin-1 beta production 10/547 101/18670 7.6e-04 8.5e-03 7.0e-03
GO:0046636 negative regulation of alpha-beta T cell activation 6/547 38/18670 7.6e-04 8.6e-03 7.0e-03
GO:0050715 positive regulation of cytokine secretion 12/547 139/18670 8.1e-04 9.0e-03 7.4e-03
GO:0071624 positive regulation of granulocyte chemotaxis 5/547 26/18670 8.4e-04 9.3e-03 7.7e-03
GO:0032715 negative regulation of interleukin-6 production 7/547 53/18670 8.5e-04 9.4e-03 7.8e-03
GO:0050702 interleukin-1 beta secretion 7/547 53/18670 8.5e-04 9.4e-03 7.8e-03
GO:0070228 regulation of lymphocyte apoptotic process 7/547 53/18670 8.5e-04 9.4e-03 7.8e-03
GO:0046330 positive regulation of JNK cascade 12/547 140/18670 8.6e-04 9.5e-03 7.8e-03
GO:0007229 integrin-mediated signaling pathway 10/547 103/18670 8.8e-04 9.7e-03 7.9e-03
GO:1902106 negative regulation of leukocyte differentiation 10/547 103/18670 8.8e-04 9.7e-03 7.9e-03
GO:0070227 lymphocyte apoptotic process 8/547 69/18670 9.0e-04 9.8e-03 8.1e-03
GO:0032760 positive regulation of tumor necrosis factor production 9/547 86/18670 9.2e-04 1.0e-02 8.3e-03
GO:0032720 negative regulation of tumor necrosis factor production 8/547 70/18670 9.9e-04 1.1e-02 8.8e-03
GO:0034121 regulation of toll-like receptor signaling pathway 8/547 70/18670 9.9e-04 1.1e-02 8.8e-03
GO:0002475 antigen processing and presentation via MHC class Ib 4/547 16/18670 1.0e-03 1.1e-02 8.8e-03
GO:0030889 negative regulation of B cell proliferation 4/547 16/18670 1.0e-03 1.1e-02 8.8e-03
GO:0033631 cell-cell adhesion mediated by integrin 4/547 16/18670 1.0e-03 1.1e-02 8.8e-03
GO:0002825 regulation of T-helper 1 type immune response 5/547 27/18670 1.0e-03 1.1e-02 8.8e-03
GO:1901623 regulation of lymphocyte chemotaxis 5/547 27/18670 1.0e-03 1.1e-02 8.8e-03
GO:0042036 negative regulation of cytokine biosynthetic process 6/547 40/18670 1.0e-03 1.1e-02 8.9e-03
GO:0007249 I-kappaB kinase/NF-kappaB signaling 18/547 269/18670 1.0e-03 1.1e-02 8.9e-03
GO:0051056 regulation of small GTPase mediated signal transduction 21/547 338/18670 1.0e-03 1.1e-02 9.2e-03
GO:0045620 negative regulation of lymphocyte differentiation 7/547 55/18670 1.1e-03 1.1e-02 9.3e-03
GO:0042531 positive regulation of tyrosine phosphorylation of STAT protein 8/547 71/18670 1.1e-03 1.1e-02 9.4e-03
GO:0051057 positive regulation of small GTPase mediated signal transduction 8/547 71/18670 1.1e-03 1.1e-02 9.4e-03
GO:0007088 regulation of mitotic nuclear division 13/547 164/18670 1.1e-03 1.2e-02 9.6e-03
GO:0051321 meiotic cell cycle 17/547 249/18670 1.1e-03 1.2e-02 9.7e-03
GO:0007520 myoblast fusion 6/547 41/18670 1.2e-03 1.2e-02 9.9e-03
GO:0150077 regulation of neuroinflammatory response 6/547 41/18670 1.2e-03 1.2e-02 9.9e-03
GO:0006334 nucleosome assembly 12/547 145/18670 1.2e-03 1.2e-02 1.0e-02
GO:1903556 negative regulation of tumor necrosis factor superfamily cytokine production 8/547 72/18670 1.2e-03 1.2e-02 1.0e-02
GO:0000768 syncytium formation by plasma membrane fusion 7/547 56/18670 1.2e-03 1.2e-02 1.0e-02
GO:0140253 cell-cell fusion 7/547 56/18670 1.2e-03 1.2e-02 1.0e-02
GO:0007076 mitotic chromosome condensation 4/547 17/18670 1.3e-03 1.3e-02 1.1e-02
GO:0010819 regulation of T cell chemotaxis 4/547 17/18670 1.3e-03 1.3e-02 1.1e-02
GO:0032740 positive regulation of interleukin-17 production 4/547 17/18670 1.3e-03 1.3e-02 1.1e-02
GO:0045072 regulation of interferon-gamma biosynthetic process 4/547 17/18670 1.3e-03 1.3e-02 1.1e-02
GO:0045132 meiotic chromosome segregation 9/547 90/18670 1.3e-03 1.3e-02 1.1e-02
GO:0046849 bone remodeling 9/547 90/18670 1.3e-03 1.3e-02 1.1e-02
GO:1903046 meiotic cell cycle process 14/547 188/18670 1.3e-03 1.3e-02 1.1e-02
GO:0035025 positive regulation of Rho protein signal transduction 5/547 29/18670 1.4e-03 1.4e-02 1.2e-02
GO:0060142 regulation of syncytium formation by plasma membrane fusion 5/547 29/18670 1.4e-03 1.4e-02 1.2e-02
GO:1902624 positive regulation of neutrophil migration 5/547 29/18670 1.4e-03 1.4e-02 1.2e-02
GO:0043254 regulation of protein complex assembly 26/547 467/18670 1.4e-03 1.4e-02 1.2e-02
GO:0070372 regulation of ERK1 and ERK2 cascade 19/547 300/18670 1.4e-03 1.4e-02 1.2e-02
GO:0006949 syncytium formation 7/547 58/18670 1.5e-03 1.5e-02 1.2e-02
GO:0061900 glial cell activation 7/547 58/18670 1.5e-03 1.5e-02 1.2e-02
GO:0042088 T-helper 1 type immune response 6/547 43/18670 1.5e-03 1.5e-02 1.2e-02
GO:0050850 positive regulation of calcium-mediated signaling 6/547 43/18670 1.5e-03 1.5e-02 1.2e-02
GO:0150076 neuroinflammatory response 8/547 75/18670 1.6e-03 1.5e-02 1.3e-02
GO:0042095 interferon-gamma biosynthetic process 4/547 18/18670 1.6e-03 1.6e-02 1.3e-02
GO:0051023 regulation of immunoglobulin secretion 4/547 18/18670 1.6e-03 1.6e-02 1.3e-02
GO:0051782 negative regulation of cell division 4/547 18/18670 1.6e-03 1.6e-02 1.3e-02
GO:0042130 negative regulation of T cell proliferation 7/547 59/18670 1.6e-03 1.6e-02 1.3e-02
GO:0001782 B cell homeostasis 5/547 30/18670 1.6e-03 1.6e-02 1.3e-02
GO:0050690 regulation of defense response to virus by virus 5/547 30/18670 1.6e-03 1.6e-02 1.3e-02
GO:0090022 regulation of neutrophil chemotaxis 5/547 30/18670 1.6e-03 1.6e-02 1.3e-02
GO:0045910 negative regulation of DNA recombination 6/547 44/18670 1.7e-03 1.6e-02 1.3e-02
GO:0032874 positive regulation of stress-activated MAPK cascade 13/547 172/18670 1.7e-03 1.6e-02 1.4e-02
GO:0140013 meiotic nuclear division 13/547 172/18670 1.7e-03 1.6e-02 1.4e-02
GO:0043122 regulation of I-kappaB kinase/NF-kappaB signaling 16/547 237/18670 1.7e-03 1.7e-02 1.4e-02
GO:0070304 positive regulation of stress-activated protein kinase signaling cascade 13/547 173/18670 1.8e-03 1.7e-02 1.4e-02
GO:0045576 mast cell activation 7/547 60/18670 1.8e-03 1.7e-02 1.4e-02
GO:0042116 macrophage activation 9/547 95/18670 1.9e-03 1.8e-02 1.5e-02
GO:0002724 regulation of T cell cytokine production 5/547 31/18670 1.9e-03 1.8e-02 1.5e-02
GO:0007202 activation of phospholipase C activity 5/547 31/18670 1.9e-03 1.8e-02 1.5e-02
GO:0002920 regulation of humoral immune response 11/547 134/18670 2.0e-03 1.9e-02 1.5e-02
GO:0050701 interleukin-1 secretion 7/547 61/18670 2.0e-03 1.9e-02 1.5e-02
GO:0002544 chronic inflammatory response 4/547 19/18670 2.0e-03 1.9e-02 1.5e-02
GO:0060252 positive regulation of glial cell proliferation 4/547 19/18670 2.0e-03 1.9e-02 1.5e-02
GO:0071800 podosome assembly 4/547 19/18670 2.0e-03 1.9e-02 1.5e-02
GO:0032612 interleukin-1 production 10/547 115/18670 2.0e-03 1.9e-02 1.6e-02
GO:1903707 negative regulation of hemopoiesis 12/547 155/18670 2.1e-03 1.9e-02 1.6e-02
GO:1900015 regulation of cytokine production involved in inflammatory response 6/547 46/18670 2.1e-03 2.0e-02 1.6e-02
GO:0035587 purinergic receptor signaling pathway 5/547 32/18670 2.2e-03 2.1e-02 1.7e-02
GO:0050764 regulation of phagocytosis 9/547 98/18670 2.3e-03 2.2e-02 1.8e-02
GO:0033045 regulation of sister chromatid segregation 8/547 80/18670 2.4e-03 2.2e-02 1.8e-02
GO:0033630 positive regulation of cell adhesion mediated by integrin 4/547 20/18670 2.4e-03 2.2e-02 1.8e-02
GO:0042535 positive regulation of tumor necrosis factor biosynthetic process 4/547 20/18670 2.4e-03 2.2e-02 1.8e-02
GO:0043371 negative regulation of CD4-positive, alpha-beta T cell differentiation 4/547 20/18670 2.4e-03 2.2e-02 1.8e-02
GO:1900017 positive regulation of cytokine production involved in inflammatory response 4/547 20/18670 2.4e-03 2.2e-02 1.8e-02
GO:1903978 regulation of microglial cell activation 4/547 20/18670 2.4e-03 2.2e-02 1.8e-02
GO:0070588 calcium ion transmembrane transport 19/547 315/18670 2.5e-03 2.3e-02 1.9e-02
GO:0002291 T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell 3/547 10/18670 2.6e-03 2.3e-02 1.9e-02
GO:0048304 positive regulation of isotype switching to IgG isotypes 3/547 10/18670 2.6e-03 2.3e-02 1.9e-02
GO:0072610 interleukin-12 secretion 3/547 10/18670 2.6e-03 2.3e-02 1.9e-02
GO:0097048 dendritic cell apoptotic process 3/547 10/18670 2.6e-03 2.3e-02 1.9e-02
GO:2000668 regulation of dendritic cell apoptotic process 3/547 10/18670 2.6e-03 2.3e-02 1.9e-02
GO:0070371 ERK1 and ERK2 cascade 19/547 317/18670 2.7e-03 2.4e-02 2.0e-02
GO:0033044 regulation of chromosome organization 20/547 342/18670 2.8e-03 2.5e-02 2.1e-02
GO:0019884 antigen processing and presentation of exogenous antigen 13/547 182/18670 2.8e-03 2.5e-02 2.1e-02
GO:0030099 myeloid cell differentiation 23/547 416/18670 2.8e-03 2.5e-02 2.1e-02
GO:0042533 tumor necrosis factor biosynthetic process 5/547 34/18670 2.9e-03 2.6e-02 2.1e-02
GO:0042534 regulation of tumor necrosis factor biosynthetic process 5/547 34/18670 2.9e-03 2.6e-02 2.1e-02
GO:0051383 kinetochore organization 4/547 21/18670 2.9e-03 2.6e-02 2.1e-02
GO:1901739 regulation of myoblast fusion 4/547 21/18670 2.9e-03 2.6e-02 2.1e-02
GO:0001894 tissue homeostasis 15/547 227/18670 2.9e-03 2.6e-02 2.1e-02
GO:0002686 negative regulation of leukocyte migration 6/547 49/18670 3.0e-03 2.6e-02 2.1e-02
GO:0046718 viral entry into host cell 10/547 121/18670 3.0e-03 2.6e-02 2.2e-02
GO:0046328 regulation of JNK cascade 13/547 185/18670 3.2e-03 2.8e-02 2.3e-02
GO:0051983 regulation of chromosome segregation 9/547 103/18670 3.3e-03 2.9e-02 2.4e-02
GO:0042092 type 2 immune response 5/547 35/18670 3.3e-03 2.9e-02 2.4e-02
GO:0060251 regulation of glial cell proliferation 5/547 35/18670 3.3e-03 2.9e-02 2.4e-02
GO:0002638 negative regulation of immunoglobulin production 3/547 11/18670 3.5e-03 3.0e-02 2.5e-02
GO:0033632 regulation of cell-cell adhesion mediated by integrin 3/547 11/18670 3.5e-03 3.0e-02 2.5e-02
GO:0071803 positive regulation of podosome assembly 3/547 11/18670 3.5e-03 3.0e-02 2.5e-02
GO:0031497 chromatin assembly 12/547 165/18670 3.5e-03 3.0e-02 2.5e-02
GO:0019883 antigen processing and presentation of endogenous antigen 4/547 22/18670 3.5e-03 3.0e-02 2.5e-02
GO:0045624 positive regulation of T-helper cell differentiation 4/547 22/18670 3.5e-03 3.0e-02 2.5e-02
GO:0002791 regulation of peptide secretion 26/547 500/18670 3.6e-03 3.1e-02 2.5e-02
GO:0030071 regulation of mitotic metaphase/anaphase transition 6/547 51/18670 3.6e-03 3.1e-02 2.6e-02
GO:0033627 cell adhesion mediated by integrin 7/547 68/18670 3.7e-03 3.2e-02 2.6e-02
GO:0051783 regulation of nuclear division 13/547 188/18670 3.7e-03 3.2e-02 2.6e-02
GO:0032733 positive regulation of interleukin-10 production 5/547 36/18670 3.8e-03 3.2e-02 2.6e-02
GO:1902622 regulation of neutrophil migration 5/547 36/18670 3.8e-03 3.2e-02 2.6e-02
GO:0002224 toll-like receptor signaling pathway 11/547 146/18670 3.9e-03 3.3e-02 2.7e-02
GO:0032703 negative regulation of interleukin-2 production 4/547 23/18670 4.1e-03 3.5e-02 2.9e-02
GO:0038083 peptidyl-tyrosine autophosphorylation 5/547 37/18670 4.3e-03 3.6e-02 3.0e-02
GO:0007254 JNK cascade 14/547 214/18670 4.4e-03 3.7e-02 3.0e-02
GO:0032872 regulation of stress-activated MAPK cascade 15/547 237/18670 4.4e-03 3.7e-02 3.0e-02
GO:0045840 positive regulation of mitotic nuclear division 6/547 53/18670 4.4e-03 3.7e-02 3.0e-02
GO:1902099 regulation of metaphase/anaphase transition of cell cycle 6/547 53/18670 4.4e-03 3.7e-02 3.0e-02
GO:0038110 interleukin-2-mediated signaling pathway 3/547 12/18670 4.5e-03 3.7e-02 3.1e-02
GO:0042368 vitamin D biosynthetic process 3/547 12/18670 4.5e-03 3.7e-02 3.1e-02
GO:0046541 saliva secretion 3/547 12/18670 4.5e-03 3.7e-02 3.1e-02
GO:0048934 peripheral nervous system neuron differentiation 3/547 12/18670 4.5e-03 3.7e-02 3.1e-02
GO:0048935 peripheral nervous system neuron development 3/547 12/18670 4.5e-03 3.7e-02 3.1e-02
GO:0070601 centromeric sister chromatid cohesion 3/547 12/18670 4.5e-03 3.7e-02 3.1e-02
GO:0070302 regulation of stress-activated protein kinase signaling cascade 15/547 239/18670 4.7e-03 3.9e-02 3.2e-02
GO:0007091 metaphase/anaphase transition of mitotic cell cycle 6/547 54/18670 4.8e-03 4.0e-02 3.3e-02
GO:0010524 positive regulation of calcium ion transport into cytosol 6/547 54/18670 4.8e-03 4.0e-02 3.3e-02
GO:0032651 regulation of interleukin-1 beta production 8/547 90/18670 4.9e-03 4.0e-02 3.3e-02
GO:0051304 chromosome separation 8/547 90/18670 4.9e-03 4.0e-02 3.3e-02
GO:0002793 positive regulation of peptide secretion 17/547 288/18670 5.1e-03 4.2e-02 3.4e-02
GO:0043030 regulation of macrophage activation 6/547 55/18670 5.3e-03 4.3e-02 3.5e-02
GO:0043551 regulation of phosphatidylinositol 3-kinase activity 6/547 55/18670 5.3e-03 4.3e-02 3.5e-02
GO:0061844 antimicrobial humoral immune response mediated by antimicrobial peptide 7/547 73/18670 5.5e-03 4.5e-02 3.7e-02
GO:0045807 positive regulation of endocytosis 11/547 153/18670 5.5e-03 4.5e-02 3.7e-02
GO:0032461 positive regulation of protein oligomerization 4/547 25/18670 5.7e-03 4.6e-02 3.8e-02
GO:0045672 positive regulation of osteoclast differentiation 4/547 25/18670 5.7e-03 4.6e-02 3.8e-02
GO:2000482 regulation of interleukin-8 secretion 4/547 25/18670 5.7e-03 4.6e-02 3.8e-02
GO:0051896 regulation of protein kinase B signaling 15/547 244/18670 5.7e-03 4.6e-02 3.8e-02
GO:0030656 regulation of vitamin metabolic process 3/547 13/18670 5.7e-03 4.6e-02 3.8e-02
GO:0035723 interleukin-15-mediated signaling pathway 3/547 13/18670 5.7e-03 4.6e-02 3.8e-02
GO:0042635 positive regulation of hair cycle 3/547 13/18670 5.7e-03 4.6e-02 3.8e-02
GO:0045779 negative regulation of bone resorption 3/547 13/18670 5.7e-03 4.6e-02 3.8e-02
GO:0071350 cellular response to interleukin-15 3/547 13/18670 5.7e-03 4.6e-02 3.8e-02
GO:0071352 cellular response to interleukin-2 3/547 13/18670 5.7e-03 4.6e-02 3.8e-02
GO:1900225 regulation of NLRP3 inflammasome complex assembly 3/547 13/18670 5.7e-03 4.6e-02 3.8e-02
GO:0044784 metaphase/anaphase transition of cell cycle 6/547 56/18670 5.8e-03 4.6e-02 3.8e-02
GO:0014015 positive regulation of gliogenesis 7/547 74/18670 5.9e-03 4.7e-02 3.8e-02
GO:0050710 negative regulation of cytokine secretion 7/547 74/18670 5.9e-03 4.7e-02 3.8e-02
GO:0002369 T cell cytokine production 5/547 40/18670 6.0e-03 4.7e-02 3.9e-02
GO:0045124 regulation of bone resorption 5/547 40/18670 6.0e-03 4.7e-02 3.9e-02
GO:0098760 response to interleukin-7 5/547 40/18670 6.0e-03 4.7e-02 3.9e-02
GO:0098761 cellular response to interleukin-7 5/547 40/18670 6.0e-03 4.7e-02 3.9e-02
GO:0043491 protein kinase B signaling 16/547 269/18670 6.0e-03 4.7e-02 3.9e-02
GO:0030260 entry into host cell 10/547 134/18670 6.1e-03 4.8e-02 3.9e-02
GO:0044409 entry into host 10/547 134/18670 6.1e-03 4.8e-02 3.9e-02
GO:0051806 entry into cell of other organism involved in symbiotic interaction 10/547 134/18670 6.1e-03 4.8e-02 3.9e-02
GO:0051828 entry into other organism involved in symbiotic interaction 10/547 134/18670 6.1e-03 4.8e-02 3.9e-02
GO:0030198 extracellular matrix organization 20/547 368/18670 6.2e-03 4.8e-02 4.0e-02
GO:0010965 regulation of mitotic sister chromatid separation 6/547 57/18670 6.3e-03 4.9e-02 4.0e-02
GO:0002218 activation of innate immune response 18/547 319/18670 6.3e-03 4.9e-02 4.0e-02


Tabla 11: GOtable que contiene las vías metabólicas expresadas diferencialmente entre los grupos NIT y ELI.


SFI vs ELI:


Description GeneRatio BgRatio pvalue p.adjust qvalue
GO:0042110 T cell activation 61/409 464/18670 4.5e-30 1.7e-26 1.5e-26
GO:0051249 regulation of lymphocyte activation 57/409 485/18670 1.4e-25 2.6e-22 2.2e-22
GO:0050863 regulation of T cell activation 46/409 314/18670 8.0e-25 1.0e-21 8.7e-22
GO:0030098 lymphocyte differentiation 48/409 353/18670 2.1e-24 2.0e-21 1.7e-21
GO:0022409 positive regulation of cell-cell adhesion 38/409 255/18670 6.4e-21 4.3e-18 3.7e-18
GO:0007159 leukocyte cell-cell adhesion 43/409 337/18670 7.4e-21 4.3e-18 3.7e-18
GO:0046651 lymphocyte proliferation 39/409 272/18670 7.8e-21 4.3e-18 3.7e-18
GO:0032943 mononuclear cell proliferation 39/409 274/18670 1.0e-20 4.9e-18 4.2e-18
GO:0050870 positive regulation of T cell activation 34/409 202/18670 1.5e-20 6.3e-18 5.3e-18
GO:1903039 positive regulation of leukocyte cell-cell adhesion 35/409 218/18670 2.0e-20 7.5e-18 6.4e-18
GO:0070661 leukocyte proliferation 40/409 298/18670 2.8e-20 9.9e-18 8.4e-18
GO:1903037 regulation of leukocyte cell-cell adhesion 40/409 304/18670 5.9e-20 1.9e-17 1.6e-17
GO:0030217 T cell differentiation 34/409 240/18670 4.0e-18 1.2e-15 9.9e-16
GO:0002696 positive regulation of leukocyte activation 42/409 380/18670 4.9e-18 1.3e-15 1.1e-15
GO:0022407 regulation of cell-cell adhesion 43/409 403/18670 7.2e-18 1.8e-15 1.6e-15
GO:0051251 positive regulation of lymphocyte activation 39/409 334/18670 1.2e-17 2.9e-15 2.5e-15
GO:0050867 positive regulation of cell activation 42/409 394/18670 1.8e-17 4.1e-15 3.5e-15
GO:0050670 regulation of lymphocyte proliferation 31/409 208/18670 2.9e-17 6.1e-15 5.2e-15
GO:0032944 regulation of mononuclear cell proliferation 31/409 209/18670 3.3e-17 6.6e-15 5.6e-15
GO:0070663 regulation of leukocyte proliferation 31/409 222/18670 1.9e-16 3.6e-14 3.1e-14
GO:0042113 B cell activation 35/409 310/18670 1.7e-15 3.1e-13 2.7e-13
GO:0045785 positive regulation of cell adhesion 38/409 403/18670 3.6e-14 6.3e-12 5.4e-12
GO:0042129 regulation of T cell proliferation 24/409 156/18670 5.8e-14 9.7e-12 8.2e-12
GO:0046631 alpha-beta T cell activation 22/409 138/18670 3.1e-13 4.8e-11 4.1e-11
GO:0042098 T cell proliferation 25/409 184/18670 3.2e-13 4.8e-11 4.1e-11
GO:0050851 antigen receptor-mediated signaling pathway 32/409 316/18670 6.0e-13 8.8e-11 7.5e-11
GO:0002460 adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains 34/409 361/18670 8.9e-13 1.3e-10 1.1e-10
GO:0042100 B cell proliferation 18/409 95/18670 2.2e-12 2.8e-10 2.4e-10
GO:0042102 positive regulation of T cell proliferation 18/409 95/18670 2.2e-12 2.8e-10 2.4e-10
GO:0002449 lymphocyte mediated immunity 33/409 352/18670 2.2e-12 2.8e-10 2.4e-10
GO:0002429 immune response-activating cell surface receptor signaling pathway 38/409 473/18670 5.2e-12 6.5e-10 5.5e-10
GO:0050671 positive regulation of lymphocyte proliferation 20/409 130/18670 7.5e-12 9.0e-10 7.6e-10
GO:0032946 positive regulation of mononuclear cell proliferation 20/409 131/18670 8.7e-12 1.0e-09 8.6e-10
GO:0070665 positive regulation of leukocyte proliferation 20/409 139/18670 2.7e-11 3.0e-09 2.5e-09
GO:0046632 alpha-beta T cell differentiation 17/409 101/18670 6.6e-11 7.2e-09 6.1e-09
GO:0002285 lymphocyte activation involved in immune response 22/409 181/18670 8.0e-11 8.5e-09 7.2e-09
GO:0043368 positive T cell selection 11/409 34/18670 8.9e-11 9.2e-09 7.8e-09
GO:0045619 regulation of lymphocyte differentiation 21/409 169/18670 1.4e-10 1.4e-08 1.2e-08
GO:0031295 T cell costimulation 13/409 56/18670 1.8e-10 1.7e-08 1.5e-08
GO:0031294 lymphocyte costimulation 13/409 57/18670 2.3e-10 2.2e-08 1.8e-08
GO:0045058 T cell selection 12/409 47/18670 2.7e-10 2.5e-08 2.2e-08
GO:1902105 regulation of leukocyte differentiation 26/409 272/18670 3.4e-10 3.1e-08 2.6e-08
GO:0007059 chromosome segregation 28/409 321/18670 5.8e-10 5.1e-08 4.4e-08
GO:0032729 positive regulation of interferon-gamma production 13/409 65/18670 1.3e-09 1.1e-07 9.6e-08
GO:0002377 immunoglobulin production 21/409 193/18670 1.7e-09 1.4e-07 1.2e-07
GO:0001819 positive regulation of cytokine production 33/409 464/18670 3.2e-09 2.6e-07 2.2e-07
GO:0050853 B cell receptor signaling pathway 17/409 129/18670 3.3e-09 2.7e-07 2.3e-07
GO:0140014 mitotic nuclear division 24/409 264/18670 4.5e-09 3.5e-07 3.0e-07
GO:0002706 regulation of lymphocyte mediated immunity 18/409 149/18670 4.7e-09 3.7e-07 3.1e-07
GO:0050900 leukocyte migration 34/409 499/18670 5.4e-09 4.1e-07 3.5e-07
GO:0045580 regulation of T cell differentiation 17/409 139/18670 1.1e-08 7.9e-07 6.7e-07
GO:0042108 positive regulation of cytokine biosynthetic process 12/409 67/18670 2.1e-08 1.5e-06 1.3e-06
GO:0032609 interferon-gamma production 15/409 113/18670 2.5e-08 1.8e-06 1.6e-06
GO:0000280 nuclear division 29/409 407/18670 2.8e-08 2.0e-06 1.7e-06
GO:0002697 regulation of immune effector process 31/409 458/18670 3.0e-08 2.1e-06 1.8e-06
GO:0000070 mitotic sister chromatid segregation 17/409 151/18670 3.7e-08 2.5e-06 2.1e-06
GO:0000819 sister chromatid segregation 19/409 189/18670 3.7e-08 2.5e-06 2.1e-06
GO:0002683 negative regulation of immune system process 31/409 463/18670 3.9e-08 2.6e-06 2.2e-06
GO:0043367 CD4-positive, alpha-beta T cell differentiation 12/409 74/18670 6.7e-08 4.3e-06 3.7e-06
GO:0002708 positive regulation of lymphocyte mediated immunity 14/409 105/18670 7.0e-08 4.5e-06 3.8e-06
GO:0002819 regulation of adaptive immune response 17/409 160/18670 8.7e-08 5.5e-06 4.6e-06
GO:0046635 positive regulation of alpha-beta T cell activation 11/409 62/18670 9.1e-08 5.6e-06 4.8e-06
GO:0002703 regulation of leukocyte mediated immunity 19/409 201/18670 1.0e-07 6.1e-06 5.2e-06
GO:0030595 leukocyte chemotaxis 20/409 224/18670 1.2e-07 7.1e-06 6.0e-06
GO:0050854 regulation of antigen receptor-mediated signaling pathway 11/409 65/18670 1.5e-07 8.9e-06 7.6e-06
GO:0048285 organelle fission 29/409 449/18670 2.3e-07 1.3e-05 1.1e-05
GO:0002699 positive regulation of immune effector process 19/409 216/18670 3.1e-07 1.8e-05 1.5e-05
GO:0032649 regulation of interferon-gamma production 13/409 101/18670 3.2e-07 1.8e-05 1.5e-05
GO:0033077 T cell differentiation in thymus 11/409 70/18670 3.3e-07 1.8e-05 1.6e-05
GO:0098813 nuclear chromosome segregation 21/409 262/18670 3.5e-07 1.9e-05 1.6e-05
GO:0016064 immunoglobulin mediated immune response 19/409 218/18670 3.6e-07 1.9e-05 1.6e-05
GO:0002440 production of molecular mediator of immune response 22/409 286/18670 3.8e-07 2.0e-05 1.7e-05
GO:0019724 B cell mediated immunity 19/409 221/18670 4.4e-07 2.3e-05 2.0e-05
GO:0002295 T-helper cell lineage commitment 6/409 16/18670 7.1e-07 3.6e-05 3.1e-05
GO:0002822 regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains 15/409 145/18670 7.1e-07 3.6e-05 3.1e-05
GO:1903706 regulation of hemopoiesis 29/409 475/18670 7.4e-07 3.7e-05 3.2e-05
GO:0030888 regulation of B cell proliferation 10/409 61/18670 7.6e-07 3.8e-05 3.2e-05
GO:0035710 CD4-positive, alpha-beta T cell activation 12/409 92/18670 7.8e-07 3.8e-05 3.2e-05
GO:0046634 regulation of alpha-beta T cell activation 12/409 93/18670 8.7e-07 4.2e-05 3.6e-05
GO:0043373 CD4-positive, alpha-beta T cell lineage commitment 6/409 17/18670 1.1e-06 5.1e-05 4.4e-05
GO:0030183 B cell differentiation 14/409 131/18670 1.1e-06 5.3e-05 4.5e-05
GO:0006959 humoral immune response 24/409 356/18670 1.2e-06 5.7e-05 4.8e-05
GO:0042035 regulation of cytokine biosynthetic process 13/409 114/18670 1.3e-06 6.0e-05 5.1e-05
GO:0002705 positive regulation of leukocyte mediated immunity 14/409 133/18670 1.3e-06 6.1e-05 5.2e-05
GO:0001773 myeloid dendritic cell activation 7/409 28/18670 1.8e-06 8.2e-05 7.0e-05
GO:0002824 positive regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains 12/409 100/18670 1.9e-06 8.5e-05 7.3e-05
GO:0031343 positive regulation of cell killing 10/409 68/18670 2.1e-06 9.4e-05 8.0e-05
GO:0002363 alpha-beta T cell lineage commitment 6/409 19/18670 2.3e-06 9.9e-05 8.4e-05
GO:0050855 regulation of B cell receptor signaling pathway 7/409 29/18670 2.4e-06 1.0e-04 8.6e-05
GO:0050852 T cell receptor signaling pathway 17/409 202/18670 2.4e-06 1.0e-04 8.6e-05
GO:0001776 leukocyte homeostasis 11/409 86/18670 2.7e-06 1.1e-04 9.8e-05
GO:0042089 cytokine biosynthetic process 13/409 123/18670 3.1e-06 1.3e-04 1.1e-04
GO:0043369 CD4-positive or CD8-positive, alpha-beta T cell lineage commitment 6/409 20/18670 3.2e-06 1.3e-04 1.1e-04
GO:0002821 positive regulation of adaptive immune response 12/409 105/18670 3.2e-06 1.3e-04 1.1e-04
GO:0002381 immunoglobulin production involved in immunoglobulin mediated immune response 9/409 56/18670 3.2e-06 1.3e-04 1.1e-04
GO:0042107 cytokine metabolic process 13/409 124/18670 3.4e-06 1.3e-04 1.1e-04
GO:0072540 T-helper 17 cell lineage commitment 5/409 12/18670 3.4e-06 1.4e-04 1.2e-04
GO:1902107 positive regulation of leukocyte differentiation 14/409 144/18670 3.5e-06 1.4e-04 1.2e-04
GO:0002286 T cell activation involved in immune response 12/409 106/18670 3.6e-06 1.4e-04 1.2e-04
GO:0060326 cell chemotaxis 21/409 304/18670 3.9e-06 1.5e-04 1.3e-04
GO:0045061 thymic T cell selection 6/409 21/18670 4.4e-06 1.7e-04 1.4e-04
GO:0045059 positive thymic T cell selection 5/409 13/18670 5.5e-06 2.1e-04 1.7e-04
GO:0048305 immunoglobulin secretion 6/409 22/18670 5.9e-06 2.2e-04 1.9e-04
GO:0045621 positive regulation of lymphocyte differentiation 11/409 94/18670 6.6e-06 2.4e-04 2.1e-04
GO:0002287 alpha-beta T cell activation involved in immune response 9/409 61/18670 6.7e-06 2.4e-04 2.1e-04
GO:0002293 alpha-beta T cell differentiation involved in immune response 9/409 61/18670 6.7e-06 2.4e-04 2.1e-04
GO:0002688 regulation of leukocyte chemotaxis 12/409 114/18670 7.7e-06 2.7e-04 2.3e-04
GO:0007204 positive regulation of cytosolic calcium ion concentration 21/409 319/18670 8.2e-06 2.9e-04 2.5e-04
GO:0031341 regulation of cell killing 11/409 98/18670 9.9e-06 3.5e-04 3.0e-04
GO:0045582 positive regulation of T cell differentiation 10/409 83/18670 1.3e-05 4.6e-04 3.9e-04
GO:0050864 regulation of B cell activation 15/409 184/18670 1.4e-05 4.7e-04 4.0e-04
GO:0007088 regulation of mitotic nuclear division 14/409 164/18670 1.6e-05 5.4e-04 4.6e-04
GO:0002292 T cell differentiation involved in immune response 9/409 68/18670 1.7e-05 5.7e-04 4.8e-04
GO:0002360 T cell lineage commitment 6/409 26/18670 1.7e-05 5.7e-04 4.8e-04
GO:0051783 regulation of nuclear division 15/409 188/18670 1.8e-05 5.9e-04 5.0e-04
GO:0001906 cell killing 14/409 168/18670 2.1e-05 6.8e-04 5.8e-04
GO:0001909 leukocyte mediated cytotoxicity 11/409 107/18670 2.3e-05 7.5e-04 6.4e-04
GO:0001912 positive regulation of leukocyte mediated cytotoxicity 8/409 56/18670 2.8e-05 9.1e-04 7.7e-04
GO:0002685 regulation of leukocyte migration 15/409 196/18670 2.9e-05 9.3e-04 7.9e-04
GO:0002312 B cell activation involved in immune response 9/409 73/18670 3.0e-05 9.5e-04 8.1e-04
GO:1902850 microtubule cytoskeleton organization involved in mitosis 12/409 131/18670 3.2e-05 1.0e-03 8.5e-04
GO:0032103 positive regulation of response to external stimulus 20/409 323/18670 3.2e-05 1.0e-03 8.6e-04
GO:0002695 negative regulation of leukocyte activation 14/409 175/18670 3.3e-05 1.0e-03 8.6e-04
GO:0051480 regulation of cytosolic calcium ion concentration 21/409 357/18670 4.4e-05 1.3e-03 1.1e-03
GO:0046641 positive regulation of alpha-beta T cell proliferation 5/409 19/18670 4.4e-05 1.4e-03 1.2e-03
GO:0002294 CD4-positive, alpha-beta T cell differentiation involved in immune response 8/409 60/18670 4.7e-05 1.4e-03 1.2e-03
GO:0001910 regulation of leukocyte mediated cytotoxicity 9/409 78/18670 5.1e-05 1.5e-03 1.3e-03
GO:0002260 lymphocyte homeostasis 8/409 62/18670 6.0e-05 1.8e-03 1.5e-03
GO:1903708 positive regulation of hemopoiesis 14/409 185/18670 6.0e-05 1.8e-03 1.5e-03
GO:0002923 regulation of humoral immune response mediated by circulating immunoglobulin 4/409 11/18670 6.6e-05 1.9e-03 1.7e-03
GO:0002637 regulation of immunoglobulin production 8/409 63/18670 6.7e-05 1.9e-03 1.7e-03
GO:0046637 regulation of alpha-beta T cell differentiation 8/409 63/18670 6.7e-05 1.9e-03 1.7e-03
GO:0046638 positive regulation of alpha-beta T cell differentiation 7/409 47/18670 6.8e-05 2.0e-03 1.7e-03
GO:0046633 alpha-beta T cell proliferation 6/409 33/18670 7.1e-05 2.0e-03 1.7e-03
GO:0072678 T cell migration 8/409 65/18670 8.4e-05 2.4e-03 2.0e-03
GO:0019722 calcium-mediated signaling 15/409 218/18670 9.8e-05 2.7e-03 2.3e-03
GO:0048872 homeostasis of number of cells 16/409 246/18670 1.1e-04 3.1e-03 2.7e-03
GO:0002687 positive regulation of leukocyte migration 11/409 128/18670 1.2e-04 3.3e-03 2.8e-03
GO:0002690 positive regulation of leukocyte chemotaxis 9/409 87/18670 1.2e-04 3.3e-03 2.8e-03
GO:0055074 calcium ion homeostasis 24/409 471/18670 1.2e-04 3.3e-03 2.8e-03
GO:0050866 negative regulation of cell activation 14/409 199/18670 1.3e-04 3.6e-03 3.0e-03
GO:0050729 positive regulation of inflammatory response 12/409 153/18670 1.4e-04 3.8e-03 3.2e-03
GO:0002709 regulation of T cell mediated immunity 8/409 70/18670 1.4e-04 3.8e-03 3.2e-03
GO:0048469 cell maturation 13/409 177/18670 1.5e-04 3.9e-03 3.3e-03
GO:0042832 defense response to protozoan 5/409 24/18670 1.5e-04 3.9e-03 3.3e-03
GO:0050857 positive regulation of antigen receptor-mediated signaling pathway 5/409 24/18670 1.5e-04 3.9e-03 3.3e-03
GO:0001562 response to protozoan 5/409 25/18670 1.8e-04 4.7e-03 4.0e-03
GO:0021700 developmental maturation 17/409 284/18670 1.9e-04 4.8e-03 4.1e-03
GO:0043374 CD8-positive, alpha-beta T cell differentiation 4/409 14/18670 1.9e-04 4.9e-03 4.2e-03
GO:0006909 phagocytosis 20/409 369/18670 2.0e-04 5.1e-03 4.3e-03
GO:1903532 positive regulation of secretion by cell 21/409 399/18670 2.1e-04 5.2e-03 4.5e-03
GO:0006874 cellular calcium ion homeostasis 23/409 458/18670 2.1e-04 5.2e-03 4.5e-03
GO:0072539 T-helper 17 cell differentiation 5/409 26/18670 2.2e-04 5.5e-03 4.7e-03
GO:0071216 cellular response to biotic stimulus 15/409 236/18670 2.3e-04 5.8e-03 4.9e-03
GO:0071219 cellular response to molecule of bacterial origin 14/409 212/18670 2.5e-04 6.2e-03 5.3e-03
GO:0042093 T-helper cell differentiation 7/409 58/18670 2.6e-04 6.5e-03 5.5e-03
GO:0045577 regulation of B cell differentiation 5/409 28/18670 3.2e-04 7.7e-03 6.6e-03
GO:0045165 cell fate commitment 16/409 270/18670 3.2e-04 7.7e-03 6.6e-03
GO:0033209 tumor necrosis factor-mediated signaling pathway 12/409 167/18670 3.2e-04 7.7e-03 6.6e-03
GO:2000404 regulation of T cell migration 6/409 44/18670 3.7e-04 8.9e-03 7.6e-03
GO:0072538 T-helper 17 type immune response 5/409 29/18670 3.8e-04 8.9e-03 7.6e-03
GO:0051250 negative regulation of lymphocyte activation 11/409 146/18670 3.8e-04 8.9e-03 7.6e-03
GO:0000910 cytokinesis 12/409 171/18670 4.0e-04 9.4e-03 8.0e-03
GO:0051321 meiotic cell cycle 15/409 249/18670 4.1e-04 9.6e-03 8.2e-03
GO:0048535 lymph node development 4/409 17/18670 4.3e-04 1.0e-02 8.5e-03
GO:0051983 regulation of chromosome segregation 9/409 103/18670 4.3e-04 1.0e-02 8.5e-03
GO:0032743 positive regulation of interleukin-2 production 5/409 30/18670 4.5e-04 1.0e-02 8.7e-03
GO:0046640 regulation of alpha-beta T cell proliferation 5/409 30/18670 4.5e-04 1.0e-02 8.7e-03
GO:0071887 leukocyte apoptotic process 9/409 104/18670 4.7e-04 1.1e-02 9.0e-03
GO:0002675 positive regulation of acute inflammatory response 5/409 31/18670 5.2e-04 1.2e-02 1.0e-02
GO:0051482 positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G protein-coupled signaling pathway 5/409 31/18670 5.2e-04 1.2e-02 1.0e-02
GO:0051047 positive regulation of secretion 21/409 428/18670 5.3e-04 1.2e-02 1.0e-02
GO:0043370 regulation of CD4-positive, alpha-beta T cell differentiation 6/409 47/18670 5.4e-04 1.2e-02 1.0e-02
GO:0007052 mitotic spindle organization 9/409 106/18670 5.4e-04 1.2e-02 1.0e-02
GO:0043011 myeloid dendritic cell differentiation 4/409 18/18670 5.4e-04 1.2e-02 1.0e-02
GO:0051023 regulation of immunoglobulin secretion 4/409 18/18670 5.4e-04 1.2e-02 1.0e-02
GO:0051782 negative regulation of cell division 4/409 18/18670 5.4e-04 1.2e-02 1.0e-02
GO:0034612 response to tumor necrosis factor 17/409 312/18670 5.6e-04 1.2e-02 1.0e-02
GO:0072503 cellular divalent inorganic cation homeostasis 23/409 493/18670 5.9e-04 1.3e-02 1.1e-02
GO:0051785 positive regulation of nuclear division 7/409 66/18670 5.9e-04 1.3e-02 1.1e-02
GO:0002237 response to molecule of bacterial origin 18/409 343/18670 6.0e-04 1.3e-02 1.1e-02
GO:0071222 cellular response to lipopolysaccharide 13/409 205/18670 6.1e-04 1.3e-02 1.1e-02
GO:0002544 chronic inflammatory response 4/409 19/18670 6.8e-04 1.4e-02 1.2e-02
GO:0060252 positive regulation of glial cell proliferation 4/409 19/18670 6.8e-04 1.4e-02 1.2e-02
GO:0032633 interleukin-4 production 5/409 33/18670 7.0e-04 1.5e-02 1.2e-02
GO:0071356 cellular response to tumor necrosis factor 16/409 291/18670 7.3e-04 1.5e-02 1.3e-02
GO:0072676 lymphocyte migration 9/409 111/18670 7.5e-04 1.5e-02 1.3e-02
GO:0097529 myeloid leukocyte migration 13/409 210/18670 7.7e-04 1.6e-02 1.3e-02
GO:0070227 lymphocyte apoptotic process 7/409 69/18670 7.7e-04 1.6e-02 1.3e-02
GO:0045132 meiotic chromosome segregation 8/409 90/18670 8.0e-04 1.6e-02 1.4e-02
GO:0045066 regulatory T cell differentiation 5/409 34/18670 8.1e-04 1.6e-02 1.4e-02
GO:0002712 regulation of B cell mediated immunity 6/409 51/18670 8.3e-04 1.6e-02 1.4e-02
GO:0002889 regulation of immunoglobulin mediated immune response 6/409 51/18670 8.3e-04 1.6e-02 1.4e-02
GO:0030071 regulation of mitotic metaphase/anaphase transition 6/409 51/18670 8.3e-04 1.6e-02 1.4e-02
GO:0050766 positive regulation of phagocytosis 7/409 70/18670 8.4e-04 1.6e-02 1.4e-02
GO:0060251 regulation of glial cell proliferation 5/409 35/18670 9.3e-04 1.8e-02 1.5e-02
GO:0090068 positive regulation of cell cycle process 16/409 298/18670 9.4e-04 1.8e-02 1.5e-02
GO:0002700 regulation of production of molecular mediator of immune response 10/409 139/18670 9.9e-04 1.9e-02 1.6e-02
GO:0051383 kinetochore organization 4/409 21/18670 1.0e-03 1.9e-02 1.6e-02
GO:0045787 positive regulation of cell cycle 19/409 389/18670 1.0e-03 1.9e-02 1.6e-02
GO:0045840 positive regulation of mitotic nuclear division 6/409 53/18670 1.0e-03 1.9e-02 1.6e-02
GO:0070228 regulation of lymphocyte apoptotic process 6/409 53/18670 1.0e-03 1.9e-02 1.6e-02
GO:1902099 regulation of metaphase/anaphase transition of cell cycle 6/409 53/18670 1.0e-03 1.9e-02 1.6e-02
GO:0032496 response to lipopolysaccharide 17/409 330/18670 1.0e-03 1.9e-02 1.7e-02
GO:0050727 regulation of inflammatory response 22/409 485/18670 1.1e-03 2.1e-02 1.8e-02
GO:0007135 meiosis II 3/409 10/18670 1.1e-03 2.1e-02 1.8e-02
GO:0061983 meiosis II cell cycle process 3/409 10/18670 1.1e-03 2.1e-02 1.8e-02
GO:0007091 metaphase/anaphase transition of mitotic cell cycle 6/409 54/18670 1.1e-03 2.1e-02 1.8e-02
GO:0002714 positive regulation of B cell mediated immunity 5/409 37/18670 1.2e-03 2.2e-02 1.9e-02
GO:0002891 positive regulation of immunoglobulin mediated immune response 5/409 37/18670 1.2e-03 2.2e-02 1.9e-02
GO:0045730 respiratory burst 5/409 37/18670 1.2e-03 2.2e-02 1.9e-02
GO:0051302 regulation of cell division 11/409 168/18670 1.2e-03 2.2e-02 1.9e-02
GO:0051303 establishment of chromosome localization 7/409 75/18670 1.3e-03 2.3e-02 1.9e-02
GO:1990868 response to chemokine 8/409 97/18670 1.3e-03 2.3e-02 2.0e-02
GO:1990869 cellular response to chemokine 8/409 97/18670 1.3e-03 2.3e-02 2.0e-02
GO:0007051 spindle organization 11/409 170/18670 1.3e-03 2.4e-02 2.0e-02
GO:0050000 chromosome localization 7/409 76/18670 1.4e-03 2.4e-02 2.0e-02
GO:0044784 metaphase/anaphase transition of cell cycle 6/409 56/18670 1.4e-03 2.4e-02 2.0e-02
GO:0090307 mitotic spindle assembly 6/409 56/18670 1.4e-03 2.4e-02 2.0e-02
GO:0050764 regulation of phagocytosis 8/409 98/18670 1.4e-03 2.4e-02 2.1e-02
GO:0032753 positive regulation of interleukin-4 production 4/409 23/18670 1.4e-03 2.5e-02 2.1e-02
GO:0036037 CD8-positive, alpha-beta T cell activation 4/409 23/18670 1.4e-03 2.5e-02 2.1e-02
GO:0010965 regulation of mitotic sister chromatid separation 6/409 57/18670 1.5e-03 2.6e-02 2.2e-02
GO:0031652 positive regulation of heat generation 3/409 11/18670 1.5e-03 2.6e-02 2.2e-02
GO:0033089 positive regulation of T cell differentiation in thymus 3/409 11/18670 1.5e-03 2.6e-02 2.2e-02
GO:0045060 negative thymic T cell selection 3/409 11/18670 1.5e-03 2.6e-02 2.2e-02
GO:0033081 regulation of T cell differentiation in thymus 4/409 24/18670 1.7e-03 2.9e-02 2.4e-02
GO:0042104 positive regulation of activated T cell proliferation 4/409 24/18670 1.7e-03 2.9e-02 2.4e-02
GO:0019932 second-messenger-mediated signaling 20/409 439/18670 1.7e-03 2.9e-02 2.5e-02
GO:0002793 positive regulation of peptide secretion 15/409 288/18670 1.8e-03 3.0e-02 2.6e-02
GO:0033045 regulation of sister chromatid segregation 7/409 80/18670 1.8e-03 3.1e-02 2.6e-02
GO:0042267 natural killer cell mediated cytotoxicity 6/409 60/18670 2.0e-03 3.2e-02 2.7e-02
GO:0051306 mitotic sister chromatid separation 6/409 60/18670 2.0e-03 3.2e-02 2.7e-02
GO:0002863 positive regulation of inflammatory response to antigenic stimulus 3/409 12/18670 2.0e-03 3.2e-02 2.7e-02
GO:0043383 negative T cell selection 3/409 12/18670 2.0e-03 3.2e-02 2.7e-02
GO:0046541 saliva secretion 3/409 12/18670 2.0e-03 3.2e-02 2.7e-02
GO:0070601 centromeric sister chromatid cohesion 3/409 12/18670 2.0e-03 3.2e-02 2.7e-02
GO:0050901 leukocyte tethering or rolling 4/409 25/18670 2.0e-03 3.2e-02 2.7e-02
GO:0007218 neuropeptide signaling pathway 8/409 104/18670 2.0e-03 3.3e-02 2.8e-02
GO:2000514 regulation of CD4-positive, alpha-beta T cell activation 6/409 61/18670 2.1e-03 3.4e-02 2.9e-02
GO:2000106 regulation of leukocyte apoptotic process 7/409 83/18670 2.3e-03 3.6e-02 3.1e-02
GO:0002456 T cell mediated immunity 8/409 106/18670 2.3e-03 3.6e-02 3.1e-02
GO:0032623 interleukin-2 production 6/409 62/18670 2.3e-03 3.6e-02 3.1e-02
GO:0045453 bone resorption 6/409 62/18670 2.3e-03 3.6e-02 3.1e-02
GO:1905818 regulation of chromosome separation 6/409 62/18670 2.3e-03 3.6e-02 3.1e-02
GO:0006775 fat-soluble vitamin metabolic process 5/409 43/18670 2.4e-03 3.7e-02 3.2e-02
GO:0050850 positive regulation of calcium-mediated signaling 5/409 43/18670 2.4e-03 3.7e-02 3.2e-02
GO:0007062 sister chromatid cohesion 6/409 63/18670 2.5e-03 3.9e-02 3.3e-02
GO:2000401 regulation of lymphocyte migration 6/409 63/18670 2.5e-03 3.9e-02 3.3e-02
GO:0031650 regulation of heat generation 3/409 13/18670 2.5e-03 3.9e-02 3.3e-02
GO:0045086 positive regulation of interleukin-2 biosynthetic process 3/409 13/18670 2.5e-03 3.9e-02 3.3e-02
GO:0050663 cytokine secretion 13/409 240/18670 2.5e-03 3.9e-02 3.3e-02
GO:0033046 negative regulation of sister chromatid segregation 5/409 44/18670 2.6e-03 4.0e-02 3.4e-02
GO:0042742 defense response to bacterium 16/409 330/18670 2.7e-03 4.0e-02 3.4e-02
GO:0032673 regulation of interleukin-4 production 4/409 27/18670 2.7e-03 4.0e-02 3.4e-02
GO:0002228 natural killer cell mediated immunity 6/409 64/18670 2.7e-03 4.1e-02 3.5e-02
GO:0016445 somatic diversification of immunoglobulins 6/409 64/18670 2.7e-03 4.1e-02 3.5e-02
GO:0046579 positive regulation of Ras protein signal transduction 6/409 64/18670 2.7e-03 4.1e-02 3.5e-02
GO:0051985 negative regulation of chromosome segregation 5/409 45/18670 2.9e-03 4.3e-02 3.7e-02
GO:0050921 positive regulation of chemotaxis 9/409 135/18670 2.9e-03 4.3e-02 3.7e-02
GO:0002548 monocyte chemotaxis 6/409 65/18670 3.0e-03 4.3e-02 3.7e-02
GO:1903046 meiotic cell cycle process 11/409 188/18670 3.0e-03 4.3e-02 3.7e-02
GO:0000075 cell cycle checkpoint 12/409 216/18670 3.0e-03 4.3e-02 3.7e-02
GO:0010818 T cell chemotaxis 4/409 28/18670 3.1e-03 4.4e-02 3.8e-02
GO:0032196 transposition 4/409 28/18670 3.1e-03 4.4e-02 3.8e-02
GO:0032770 positive regulation of monooxygenase activity 4/409 28/18670 3.1e-03 4.4e-02 3.8e-02
GO:0050920 regulation of chemotaxis 12/409 217/18670 3.1e-03 4.4e-02 3.8e-02
GO:0050862 positive regulation of T cell receptor signaling pathway 3/409 14/18670 3.2e-03 4.5e-02 3.9e-02
GO:0070098 chemokine-mediated signaling pathway 7/409 88/18670 3.2e-03 4.5e-02 3.9e-02
GO:0045931 positive regulation of mitotic cell cycle 10/409 163/18670 3.2e-03 4.6e-02 3.9e-02
GO:0050868 negative regulation of T cell activation 8/409 112/18670 3.2e-03 4.6e-02 3.9e-02
GO:0032465 regulation of cytokinesis 7/409 89/18670 3.4e-03 4.8e-02 4.1e-02
GO:0035025 positive regulation of Rho protein signal transduction 4/409 29/18670 3.5e-03 4.9e-02 4.1e-02
GO:0007093 mitotic cell cycle checkpoint 10/409 165/18670 3.5e-03 4.9e-02 4.1e-02
GO:0002204 somatic recombination of immunoglobulin genes involved in immune response 5/409 47/18670 3.5e-03 4.9e-02 4.1e-02
GO:0002208 somatic diversification of immunoglobulins involved in immune response 5/409 47/18670 3.5e-03 4.9e-02 4.1e-02
GO:0030261 chromosome condensation 5/409 47/18670 3.5e-03 4.9e-02 4.1e-02
GO:0045190 isotype switching 5/409 47/18670 3.5e-03 4.9e-02 4.1e-02
GO:0002791 regulation of peptide secretion 21/409 500/18670 3.5e-03 4.9e-02 4.1e-02
GO:0051304 chromosome separation 7/409 90/18670 3.6e-03 4.9e-02 4.2e-02
GO:0071674 mononuclear cell migration 7/409 90/18670 3.6e-03 4.9e-02 4.2e-02


Tabla 12: GOtable que contiene las vías metabólicas expresadas diferencialmente entre los grupos SFI y ELI.


De forma análoga a las toptables, las pathwaytables o GOtables también contienen demasiada información. Una solución mucho más visual consiste en construir un barplot y un cnetplot para cada una de las comparaciones. A continuación se muestran los barplots (Figura 4) y los cnetplots (Figura 5) corresondientes a cada una de las tablas que se acaban de presentar. En el caso de los barplots, las barras están ordenadas de mayor a menor evidencia de que esa vía este diferencialmente expresada.



Figura 4: barplots que muestran las 10 vías metabólicas con mayor evidencia de estar diferencialmente expresadas en las comparaciones NIT-SFI (A), NIT-ELI (B) y SFI-ELI (C).



Figura 5: cnetplots que muestran las 4 vías metabólicas con mayor evidencia de estar diferencialmente expresadas en las comparaciones NIT-SFI (A), NIT-ELI (B) y SFI-ELI (C).


Para comentar y analizar estos resultados obtenidos, lo haremos comparación a comparación. Empezaremos -pues- por la comparación NIT-SFI. Si nos fijamos en los outputs de la GOtable (Tabla 10), el barplot (Figura 4.A) y el cnetplot (Figura 5.A) podemos identificar que las 4 rutas metabólicas que tienen una mayor evidencia de estar parcialmente diferencialmente expresadas están relacionadas con la respuesta inmune. En concreto estas vías están implicadas en la activación, señalización y la proliferación de los limfocitos B y en la respuesta inmune de tipo humoral. Adicionalmente es importante remarcar que la cantidad de genes diferencialmente expresados entre conidiciones oscila alrededor de 10 por vía y que todos estos genes se encuentran infraexpresados para la condición SFI.


Sigamos con la comparación NIT-ELI (Tabla 11, Figura 4.B, Figura 5.B). Analizando los resultados generados, identificamos que las 4 rutas con una mayor evidencia de estar diferencialmente expresadas también están relacionadas con la respuesta inmune. Sin embargo, esta vez las vías están más ligadas a los limfocitos T que a los B. Concretamente, las vías afectadas tienen relación con la activación y diferenciación de los limfocitos T aunque también de otro tipo de limfocitos. Para cada una de estas vías el número de genes diferencialmente expresados oscila entre 58 y 94. Otro hecho que podemos observar y que es muy interesante, es que todos estos genes están infraexpresados en la condición EFI menos tres (TAC1, IHH, IL6).


Finalmente, para la comparación SFI-ELI (Tabla 12, Figura 4.C, Figura 5.C) vemos que 2 de las 4 rutas con una mayor evidencia de estar diferencialmente expresadas son las mismas que vimos para la comparación NIT-ELI. En cuanto a las otras dos, estas tienen una relación muy estrecha con las que se observaron para la comparación anterior. Las vías afectadas están relacionadas con la activación de los limfocitos T y con la activación y regulación de otros limfocitos. El número de genes afectados para cada una de estas vías se mueve dentro del intervalo [48, 61]. Además, si miramos el cnetplot podemos ver que -de nuevo- sólo tres genes están sobrexpresados (IGF1, IL6, TAC1), estando dos de ellos compartidos con la comparación anterior.


Discusión


En cualquier proyecto de investigación, la discusión de los resultados y la extracción de conclusiones requieren de un conocimiento exhaustivo del contexto biológico del estudio. Sin embargo, obtener el grado adecuado de este conocimiento puede implicar meses o años realizando investigación en una misma dirección. Por ese motivo, con mucha frecuencia, el papel del bioinformático pasa a un segundo plano en esta parte del proceso de investigación. Su papel, pues, consiste básicamente en ofrecer soporte al resto del equipo, generar un informe con los resultados y, dentro de lo posible, comentarlos. Aunque en la sección de resultados ya hemos realizado una breve discusión de estos, hemos decidido presentar -a continuación- una valoración general.


A diferencia de la PEC 1, donde nos intentamos basar en los métodos propuestos por el personal docente, en este caso hemos intendado improvisar un poco y utilizar aquellas pruebas/análisis y aquellos paquetes/librerías que más nos han convenido. Aunque no es mi intención utilizar esto como excusa, debido a temas laborales que han implicado emigrar a otro país, para algunos de los análisis hemos utilizado paquetes que -a priori- pueden parecer relativamente antiguos. La velocidad con la que avanzan las diferentes ramas de la bioinformática y la aparición constante de nuevos paquetes sumada a la falta de tiempo ha hecho que hayamos intendado simplificar el workflow de análisis.


A pesar de todo lo comentado anteriormente, hemos obtenido unos resultados que podemos considerar -como mínimo- interesantes. A continuación pasamos a comentarlos. Según los datos obtenidos, la expresión diferencial entre las condiciones NIT (control) y SFI (infilitraciones focales) es poco significativa. La aplicación de infilitraciones focales en el tejido tiroide afecta solo a un 0.71% de los genes, estando un 0.11% de ellos sobrexpresados y un 0.6% infraexpresados (Tabla 7, Figura 3.A). En contraste, si nos fijamos en las dos otras comparaciones, observamos que la aplicación de infiltraciones extensivas provoca una expresión diferencial significativa. Respecto al control, esta aplicación afecta la expresión de un 8.1% de los genes, estando un 2% sobrexpresados y un 6.1% infraexpresados. En cambio, respecto al grupo con infiltraciones focales, vemos que esta aplicación afecta la expresión del 8.9% de los genes. En síntonia con lo observado para la comparación NIT vs SFI, la mayoría de estos genes están infraexpresados (6.1% frente a 2.8%). Los volcano plots secundan estas conclusiones y nos permiten asimilar estas ideas de forma más visual.


Aunque los resultados que acabamos de presentar son muy interesantes y válidos, para sacar conclusiones es más conveniente traducir estos resultados de genes a vías metabólicas diferencialmente expresadas. La generación de pathwaytables y -a partir de estas- de barplots y cnetplots revela que en cualquiera de las tres comparaciones las vías metabólicas afectadas tienen relación con la respuesta inmune. Más concretamente con la activación, proliferación y diferenciación de los limfocitos B y T. Es importante destacar que para la comparación NIT-SFI, la mayoría de genes afectados están más relacionados con los limfocitos B mientras que para las otras dos comparaciones lo están para los T. Adicionalmente, como ya hemos visto anteriormente, casi todos los genes están infraexpresados. Sin embargo, para las comparaciones NIT-ELI y SFI-ELI, tres genes están sobrexpresados. Estos son IL6 y TAC1 (compartidos) y IGF1 (SFI-ELI) o RUNX3 (NIT-ELI). En consecuencia, podría ser interesante ver que función tienen estos genes y porque están sobrexpresados.


En síntesi, la aplicación de infiltraciones focales en el tejido tiroideo tienen un efecto significativamente leve sobre la respuesta inmune, provocando la infraexpresión de un número pequeño de genes. Sin embargo, la aplicación de inflitraciones extensivas tiene un efecto mucho más potente, provocando la infraexpresión de un número mucho más considerable de genes relacionados también con la respuesta inmune. Finalmente, si comparamos el grupo con extensiones focales y extensivas obtenemos unos resultados muy parecidos a los obtenidos entre el control y el segundo grupo.


Annexo


A continuación se muestra todo el código que hemos utilizado para este análisis. Este contenido es idéntico a aquel presente dentro del script Garcia_Marc_ADO_PEC2.R.


# PEC2: Análisis de Datos Ómicos

# ------------------------------------------------------------------------------------------------------------------------------------------------------

# Estableciendo el directorio de trabajo

setwd("C:/Users/USER/Documents/Màster Bioestadística i Bioinfo/Análisis de datos Ómicos/PECS/ADO_PEC2_Marc_Garcia/")

# -------------------------------------------------------------------------------------------------------------------------------------------------------

# Preparando el entorno de trabajo 

dir.create("data")
dir.create("scripts")
dir.create("results")
dir.create("other")
dir.create("figures")

# -------------------------------------------------------------------------------------------------------------------------------------------------------

# Carga de paquetes

# 1) CRAN

library(readxl)
library(ggplot2)
library(ggrepel)
library(viridis)
library(magrittr)
library(cowplot)
library(cluster)
library(factoextra)

# 2) Bioconductor

library(Biobase)
library(DESeq2)
library(AnnotationDbi)
library(EnhancedVolcano)
library(org.Hs.eg.db)
library(clusterProfiler)
library(ReactomePA)
library(enrichplot)

# -----------------------------------------------------------------------------------------------------------------------------------------------------

# Cargando los datos

counts_raw <- read.csv(file = "data/counts.csv", 
                       sep = ";", 
                       header = T, 
                       row.names = 1, 
                       stringsAsFactors = F, 
                       check.names = F) 

targets_file <- read.csv(file = "data/targets.csv", 
                         sep = ",")

# -----------------------------------------------------------------------------------------------------------------------------------------------------

# Exploración raw counts + targets file

# 1) Raw counts

dim(counts_raw)                                                                       
View(counts_raw)                                                                      
head(counts_raw[ , 1:4], 8)                                                           

# 2) Targets

dim(targets_file)                                                                     
View(targets_file)                                                                    
head(targets_file, 10)                                                                

# ----------------------------------------------------------------------------------------------------------------------------------------------------

# Preprocesado de los datos

# 1) Selección de las muestras

targets_file_nit <- targets_file[targets_file$Group == "NIT", ]                       
targets_file_sfi <- targets_file[targets_file$Group == "SFI", ]                       
targets_file_eli <- targets_file[targets_file$Group == "ELI", ]                       

sample_names_nit <- as.character(targets_file_nit$Sample_Name)                        
sample_names_sfi <- as.character(targets_file_sfi$Sample_Name)                        
sample_names_eli <- as.character(targets_file_eli$Sample_Name)                        

set.seed(65261)                                                                         
nit_subset <- sample(x = sample_names_nit, size = 10, replace = F)                     
sfi_subset <- sample(x = sample_names_sfi, size = 10, replace = F)                    
eli_subset <- sample(x = sample_names_eli, size = 10, replace = F)                    
selected_samples <- c(nit_subset, sfi_subset, eli_subset)                             

# 2) Subsetting

# 2.1) Counts

counts_raw_sub <- counts_raw[ , selected_samples]                                     

# 2.2) Targets

rownames(targets_file) <- targets_file$Sample_Name                                    
targets_raw_sub <- targets_file[selected_samples, ]

# 3) Cambio de nombre de las muestras

colnames(counts_raw_sub)[1:10] <- paste0("NIT_", 1:10)                                
colnames(counts_raw_sub)[11:20] <- paste0("SFI_", 1:10)                               
colnames(counts_raw_sub)[21:30] <- paste0("ELI_", 1:10)                               
rownames(targets_raw_sub) <- colnames(counts_raw_sub)
targets_raw_sub$color <- c(rep("#238A8DFF", 10), rep("#DCE319FF", 10), rep("#481567FF", 10))

# 4) Comprobaciones

head(counts_raw_sub[1:17], 10)
colnames(counts_raw_sub)
rownames(targets_raw_sub)

# 5) Guardando los subsets

# 5.1) Counts

write.csv(x = counts_raw_sub, 
          file = "data/counts_sub.csv", 
          row.names = T)

# 5.2) Targets

write.csv(x = targets_raw_sub, 
          file = "data/targets_sub.csv", 
          row.names = T)
  
# ----------------------------------------------------------------------------------------------------------------------------------------------------

# Construcción de un objeto DESeq dataset

count_data <- read.csv("data/counts_sub.csv", row.names = 1)
col_data <- read.csv("data/targets_sub.csv", row.names = 1)

(dds_mat <- DESeqDataSetFromMatrix(countData = count_data, 
                                   colData = col_data, 
                                   design = ~ Group))

# --------------------------------------------------------------------------------------------------------------------------

# Eliminando genes no expresados

(dds_mat_filtered <- dds_mat[rowSums(counts(dds_mat)) >= 1, ])
filtered_out <- nrow(dds_mat) - nrow(dds_mat_filtered)

# --------------------------------------------------------------------------------------------------------------------------

# Transformación vst

vsd <- vst(object = dds_mat_filtered, blind = FALSE)
head(assay(vsd), 10)[ , 1:10]

# --------------------------------------------------------------------------------------------------------------------------

# Control de calidad

# 1) Boxplot

dir.create("figures/boxplots")

(g1 <- ggplot(stack(data.frame(assay(vsd))), aes(x = ind, y = values, fill = ind)) +
  geom_boxplot() +
  scale_fill_manual(values = targets_raw_sub$color) +
    labs(title = "Boxplot transformed counts", 
         x = "muestra", 
         y = "pseudocounts") +
    theme_classic() +
    theme(legend.position = "none", axis.text.x = element_text(angle = 90, hjust = 1)) +
    theme(axis.title.y = element_text(margin = margin(t = 0, r = 10, b = 0, l = 0)),
          axis.title.x = element_text(margin = margin(t = 10, r = 0, b = 0, l = 0))))

tiff("figures/boxplots/pseudocount_raw.tiff", 
     res = 300, 
     width = 5.5, 
     height = 5.5, 
     units = 'in', 
     bg = NA)

print(g1)

dev.off()

# 2) PCA plot

plotPCA3 <- function (datos, labels, factor, title, scale, size = 1.5, glineas = 0.25) {
  
  data <- prcomp(t(datos), scale = scale)
  
  # plot adjustments
  
  dataDf <- data.frame(data$x)
  Group <- factor
  loads <- round(data$sdev^2/sum(data$sdev^2) * 100, 1)
  
  # main plot
  
  p1 <- ggplot(data = dataDf, aes(x = PC1, y = PC2)) +
    theme_classic() +
    geom_hline(yintercept = 0, color = "gray70") +
    geom_vline(xintercept = 0, color = "gray70") +
    geom_point(aes(color = Group), size = 2) +
    coord_cartesian(xlim = c(min(data$x[ , 1]) - 5, max(data$x[ , 1]) + 5)) +
    scale_fill_discrete(name = "Group") +
    theme(axis.title.y = element_text(size = 10,
                                      margin = margin(t = 0, r = 10, b = 0, l = 0)),
          axis.title.x = element_text(size = 10,
                                      margin = margin(t = 10, r = 0, b = 0, l = 0)),
          axis.text = element_text(size = 7), 
          legend.text = element_text(size = 8),
          legend.title = element_text(size = 10),
          legend.key.size = unit(0.4, "cm"),
          legend.key.width = unit(0.5,"cm")) 
  
  # avoiding labels superposition
  
  p1 + geom_text_repel(aes(y = PC2 + 0.25, label = labels), segment.size = 0.25, size = size) + 
    labs(x = c(paste("PC1", loads[1], "%")), y = c(paste("PC2", loads[2], "%"))) +  
    ggtitle(paste("PCA for: ", title, sep = " ")) + 
    scale_color_viridis(discrete = T)
}

dir.create("figures/PCA_plots")

tiff("figures/PCA_plots/PCA_raw.tiff", 
       res = 300, 
       width = 5.5, 
       height = 5.5, 
       units = 'in', 
       bg = NA)
  
print(plotPCA3(datos = assay(vsd), 
                 labels = colnames(counts_raw_sub), 
                 factor = targets_raw_sub$Group, 
                 title = "transformed counts", 
                 scale = F, 
                 size = 2.5))

dev.off()

# 3) Dendrograma

sample_dist <- dist(t(assay(vsd)))
res <- hcut(sample_dist, k = 2, stand = T, method = "euclidean")
res$labels <- as.character(colnames(dds_mat_filtered))

dir.create("figures/dendrograms")

tiff("figures/dendrograms/dendrogram.tiff", 
     res = 300, 
     width = 10, 
     height = 5.5, 
     units = 'in', 
     bg = NA)

print(fviz_dend(res, 
                rect = T, 
                cex = 0.5, 
                lwd = 1, 
                k_colors = c("#440154FF", "#FDE725FF"), 
                label_cols = "black"))

dev.off()

# -------------------------------------------------------------------------------------------------------------------------

# Selección de genes diferencialmente expresados (DEG) 

# 1) Construyendo DESeq2DataSet

dds_mat <- DESeqDataSetFromMatrix(countData = count_data, 
                                  colData = col_data, 
                                  design = ~ Group)

# 2) Filtrando genes que cierta expresión

dds_mat_filtered <- dds_mat[rowSums(counts(dds_mat)) >= 1, ]

# 3) Creación de objeto DESeq

dds <- DESeq(dds_mat_filtered, parallel = T)

# 4) Contrastes

# 4.1) NIT vs SFI

# 4.1.1) Generando resultados contraste

res_1 <- results(dds, contrast = c("Group","NIT","SFI"))

# 4.1.2) Modificando los ENSEMBL gene ids

rownames(res_1) <- gsub("\\..*","", rownames(res_1))

# 4.1.3) Consultando resumen de los resultados (padj < 0.1)

summary_1 <- summary(res_1, alpha = 0.1)

# 4.1.4) Anotando DEG (genesymbol + entrezid)

res_1$symbol <- mapIds(x = org.Hs.eg.db, 
                       keys = rownames(res_1), 
                       column = "SYMBOL", 
                       keytype = "ENSEMBL", 
                       multiVals = "first")

res_1$entrez <- mapIds(x = org.Hs.eg.db,
                       keys = rownames(res_1),
                       column = "ENTREZID",
                       keytype = "ENSEMBL",
                       multiVals="first")

# 4.1.5) Eliminando genes que no tienen anotación

res_1 <- na.omit(res_1)

# 4.1.6) Guardando el contenido de la toptable

dir.create("results/top_taples")

write.csv(x = res_1, 
          file = "results/top_taples/top_table_NITvsSFI.csv", 
          row.names = T)

# 4.1.7) Filtrando DEG (log2FC > 2 & padj < 0.1)

res_1_filtered <- as.data.frame(res_1)[which(res_1$padj < 0.1 & abs(res_1$log2FoldChange) > 2), ]
res_1_filtered <- res_1_filtered[order(res_1_filtered$padj), ]
View(res_1_filtered)

# 4.1.8) Guardando el contenido de la toptable filtrada

dir.create("results/top_tables_filtered")

write.csv(x = res_1_filtered, 
          file = "results/top_tables_filtered/top_table_NITvsSFI_filtered.csv", 
          row.names = T)

# 4.1.9) Volcano plot

dir.create("figures/volcano_plots")

tiff(filename = "figures/volcano_plots/volcano_plot_NITvsSFI.tiff", 
     width = 5.5, 
     height = 5.5, 
     res = 300, 
     units = "in")

print(EnhancedVolcano(toptable = res_1, 
                      lab = res_1$symbol,
                      selectLab = res_1$symbol[order(res_1$padj)][1:5],
                      x = "log2FoldChange", 
                      y = "padj", 
                      pCutoff = 0.1, 
                      FCcutoff = 1,
                      ylim = c(0, 7), 
                      xlim = c(-7, 5), 
                      pointSize = 1.7,
                      axisLabSize = 13,
                      labSize = 4,
                      subtitle = "",
                      caption = "",
                      title = "NIT vs SFI", 
                      titleLabSize = 18, 
                      legendVisible = F,
                      legendPosition = "bottom", 
                      legendLabSize = 10, 
                      legendIconSize = 3))

dev.off()

# 4.1.10) heatmap

dir.create("figures/heatmaps")

h_res_1 <- as.matrix(counts_raw_sub[rownames(res_1_filtered), 1:20])
rownames(h_res_1) <- res_1_filtered$symbol

tiff(filename = "figures/heatmaps/heatmap_NITvsSFI.tiff", 
     width = 5.5, 
     height = 5.5, 
     res = 300, 
     units = "in")

heatmap(h_res_1)

dev.off()

# 4.2) NIT vs ELI

# 4.2.1) Generando resultados contraste

res_2 <- results(dds, contrast = c("Group", "NIT", "ELI"))

# 4.2.2) Modificando los ENSEMBL gene ids

rownames(res_2) <- gsub("\\..*","", rownames(res_2))

# 4.2.3) Consultando resumen de los resultados (padj < 0.1)

summary_1 <- summary(res_2, alpha = 0.1)

# 4.2.4) Anotando DEG

res_2$symbol <- mapIds(x = org.Hs.eg.db, 
                       keys = rownames(res_2), 
                       column = "SYMBOL", 
                       keytype = "ENSEMBL", 
                       multiVals = "first")

res_2$entrez <- mapIds(x = org.Hs.eg.db,
                       keys = rownames(res_2),
                       column = "ENTREZID",
                       keytype = "ENSEMBL",
                       multiVals="first")

# 4.2.5) Eliminando genes que no tienen anotación

res_2 <- na.omit(res_2)

# 4.2.6) Guardando el contenido de la toptable

write.csv(x = res_2, 
          file = "results/top_taples/top_table_NITvsELI.csv", 
          row.names = T)

# 4.2.7) Filtrando DEG (log2FC > 2 & padj < 0.1)

res_2_filtered <- as.data.frame(res_2)[which(res_2$padj < 0.1 & abs(res_2$log2FoldChange) > 2), ]
res_2_filtered <- res_2_filtered[order(res_2_filtered$padj), ]
View(res_2_filtered)

# 4.2.8) Guardando contenido de la toptable filtrada

write.csv(x = res_2_filtered, 
          file = "results/top_tables_filtered/top_table_NITvsELI_filtered.csv", 
          row.names = T)

# 4.2.9) Volcano plot

tiff(filename = "figures/volcano_plots/volcano_plot_NITvsELI.tiff", 
     width = 5.5, 
     height = 5.5, 
     res = 300, 
     units = "in")

print(EnhancedVolcano(toptable = res_2, 
                      lab = res_2$symbol,
                      selectLab = res_2$symbol[order(res_2$padj)][1:5],
                      x = "log2FoldChange", 
                      y = "padj", 
                      pCutoff = 0.1, 
                      FCcutoff = 1,
                      ylim = c(0, 30), 
                      xlim = c(-10, 5), 
                      pointSize = 1.7,
                      axisLabSize = 13,
                      labSize = 4,
                      subtitle = "",
                      caption = "",
                      title = "NIT vs ELI", 
                      titleLabSize = 18, 
                      legendVisible = F,
                      legendPosition = "bottom", 
                      legendLabSize = 10, 
                      legendIconSize = 3))

dev.off()

# 4.2.10) heatmap

h_res_2 <- as.matrix(counts_raw_sub[rownames(res_2_filtered), 1:20])
rownames(h_res_2) <- res_2_filtered$symbol

tiff(filename = "figures/heatmaps/heatmap_NITvsSFI.tiff", 
     width = 5.5, 
     height = 5.5, 
     res = 300, 
     units = "in")

heatmap(h_res_2)

dev.off()

# 4.3) SFI vs ELI

# 4.3.1) Generando resultados contraste

res_3 <- results(dds, contrast = c("Group", "SFI", "ELI"))

# 4.3.2) Modificando los ENSEMBL gene ids

rownames(res_3) <- gsub("\\..*","", rownames(res_3))

# 4.3.3) Consultando resumen de los resultados (padj < 0.1)

summary_3 <- summary(res_3, alpha = 0.1)

# 4.3.4) Anotando DEG

res_3$symbol <- mapIds(x = org.Hs.eg.db, 
                       keys = rownames(res_3), 
                       column = "SYMBOL", 
                       keytype = "ENSEMBL", 
                       multiVals = "first")

res_3$entrez <- mapIds(x = org.Hs.eg.db,
                       keys = rownames(res_3),
                       column = "ENTREZID",
                       keytype = "ENSEMBL",
                       multiVals="first")

# 4.3.5) Eliminando genes que no tienen anotación

res_3 <- na.omit(res_3)

# 4.3.6) Guardando el contenido de la toptable

write.csv(x = res_3, 
          file = "results/top_taples/top_table_SFIvsELI.csv", 
          row.names = T)

# 4.3.7) Filtrando DEG (log2FC > 2 & padj < 0.1)

res_3_filtered <- as.data.frame(res_3)[which(res_3$padj < 0.1 & abs(res_3$log2FoldChange) > 2), ]
res_3_filtered <- res_3_filtered[order(res_3_filtered$padj), ]
View(res_filtered)

# 4.3.8) Guardando contenido de la toptable filtrada

write.csv(x = res_3_filtered, 
          file = "results/top_tables_filtered/top_table_SFIvsELI_filtered.csv", 
          row.names = T)

# 4.3.9) Volcano plot

tiff(filename = "figures/volcano_plots/volcano_plot_SFIvsELI.tiff", 
     width = 5.5, 
     height = 5.5, 
     res = 300, 
     units = "in")

print(EnhancedVolcano(toptable = res_3, 
                      lab = res_3$symbol,
                      selectLab = res_3$symbol[order(res_3$padj)][1:5],
                      x = "log2FoldChange", 
                      y = "padj", 
                      pCutoff = 0.1, 
                      FCcutoff = 1,
                      ylim = c(0, 15), 
                      xlim = c(-10, 5), 
                      pointSize = 1.7,
                      axisLabSize = 13,
                      labSize = 4,
                      subtitle = "",
                      caption = "",
                      title = "SFI vs ELI", 
                      titleLabSize = 18, 
                      legendVisible = F,
                      legendPosition = "bottom", 
                      legendLabSize = 10, 
                      legendIconSize = 3))

dev.off()

# 4.3.10) heatmap

h_res_3 <- as.matrix(counts_raw_sub[rownames(res_3_filtered), 1:20])
rownames(h_res_3) <- res_3_filtered$symbol

tiff(filename = "figures/heatmaps/heatmap_NITvsSFI.tiff", 
     width = 5.5, 
     height = 5.5, 
     res = 300, 
     units = "in")

heatmap(h_res_3)

legend("topright",     
       legend = c("NIT", "SFI"), 
       col = c("royalblue3","goldenrod"),
       lty = 1,
       lwd = 10)

dev.off()

# -------------------------------------------------------------------------------------------------------------------------

# Análisis de significación (gene enrichment analysis)

# 1) NIT vs SFI

dir.create("results/GO_tables")
dir.create("figures/cnet_plots")
dir.create("figures/bar_plots")

entrez_res_1 <- res_1_filtered$entrez

res_1_enriched <- enrichGO(gene = entrez_res_1,
                           OrgDb = org.Hs.eg.db,
                           ont = "BP",
                           pAdjustMethod = "BH",
                           pvalueCutoff = 0.05, 
                           qvalueCutoff = 0.05,
                           readable = TRUE)

GO_table_res_1 <- as.data.frame(res_1_enriched@result)[ , 1:7]
GO_table_res_1 <- GO_table_res_1[GO_table_res_1$p.adjust < 0.05 & GO_table_res_1$qvalue < 0.05, ]
View(GO_table_res_1)

write.csv(x = GO_table_res_1, 
          file = "results/GO_tables/GO_table_NITvsSFI.csv", 
          row.names = T)

tiff(filename = "figures/bar_plots/bar_plot_NITvsSFI.tiff", 
     width = 15, 
     height = 8, 
     res = 300, 
     units = "in")

barplot(res_1_enriched, showCategory = 10) 

dev.off()

logFC <- res_1_filtered$log2FoldChange[res_1_filtered$padj < 0.05]
names <- res_1_filtered$symbol[res_1_filtered$padj < 0.05]
vec <- setNames(logFC, names)

tiff(filename = "figures/cnet_plots/cnet_plot_NITvsSFI.tiff", 
     width = 7.5, 
     height = 7, 
     res = 300, 
     units = "in")

cnetplot(x = res_1_enriched, 
         node_label = "all", 
         showCategory = 5, 
         foldChange = vec, 
         layout = "kk", 
         circular = F)

dev.off()

# 2) NIT vs ELI

entrez_res_2 <- res_2_filtered$entrez

res_2_enriched <- enrichGO(gene = entrez_res_2,
                           OrgDb = org.Hs.eg.db,
                           ont = "BP",
                           pAdjustMethod = "BH",
                           pvalueCutoff = 0.05, 
                           qvalueCutoff = 0.05,
                           readable = TRUE)

GO_table_res_2 <- as.data.frame(res_2_enriched@result)[ , 1:7]
GO_table_res_2 <- GO_table_res_2[GO_table_res_2$p.adjust < 0.05 & GO_table_res_2$qvalue < 0.05, ]
View(GO_table_res_2)

write.csv(x = GO_table_res_2, 
          file = "results/GO_tables/GO_table_NITvsELI.csv", 
          row.names = T)

tiff(filename = "figures/bar_plots/bar_plot_NITvsELI.tiff", 
     width = 15, 
     height = 8, 
     res = 300, 
     units = "in")

barplot(res_2_enriched, showCategory = 10) 

dev.off()

logFC <- res_2_filtered$log2FoldChange[res_2_filtered$padj < 0.05]
names <- res_2_filtered$symbol[res_2_filtered$padj < 0.05]
vec <- setNames(logFC, names)

tiff(filename = "figures/cnet_plots/cnet_plot_NITvsELI.tiff", 
     width = 7.5, 
     height = 7, 
     res = 300, 
     units = "in")

cnetplot(x = res_2_enriched, 
         node_label = "all", 
         showCategory = 4, 
         foldChange = vec, 
         layout = "kk", 
         circular = F)

dev.off()

# 3) SFI vs ELI

entrez_res_3 <- res_3_filtered$entrez

res_3_enriched <- enrichGO(gene = entrez_res_3,
                           OrgDb = org.Hs.eg.db,
                           ont = "BP",
                           pAdjustMethod = "BH",
                           pvalueCutoff = 0.15,
                           readable = TRUE)

GO_table_res_3 <- as.data.frame(res_3_enriched@result)[ , 1:7]
GO_table_res_3 <- GO_table_res_3[GO_table_res_3$p.adjust < 0.05 & GO_table_res_3$qvalue < 0.05, ]
View(GO_table_res_3)

write.csv(x = GO_table_res_3, 
          file = "results/GO_tables/GO_table_SFIvsELI.csv", 
          row.names = T)

tiff(filename = "figures/bar_plots/bar_plot_SFIvsELI.tiff", 
     width = 15, 
     height = 8, 
     res = 300, 
     units = "in")

barplot(res_3_enriched, showCategory = 10) 

dev.off()

logFC <- res_3_filtered$log2FoldChange[res_3_filtered$padj < 0.05]
names <- res_3_filtered$symbol[res_3_filtered$padj < 0.05]
vec <- setNames(logFC, names)

tiff(filename = "figures/cnet_plots/cnet_plot_SFIvsELI.tiff", 
     width = 7.5, 
     height = 7, 
     res = 300, 
     units = "in")

cnetplot(x = res_3_enriched, 
         node_label = "all", 
         showCategory = 4, 
         foldChange = vec, 
         layout = "kk", 
         circular = F)

dev.off()


Referencias


Afgan, Enis, Dannon Baker, Marius van den Beek, Daniel Blankenberg, Dave Bouvier, Martin Čech, John Chilton, et al. 2016. “The Galaxy Platform for Accessible, Reproducible and Collaborative Biomedical Analyses: 2016 Update.” Nucleic Acids Research 44 (W1): W3–W10. https://doi.org/10.1093/nar/gkw343.

Blighe, Kevin, Sharmila Rana, and Myles Lewis. 2019. EnhancedVolcano: Publication-Ready Volcano Plots with Enhanced Colouring and Labeling. https://github.com/kevinblighe/EnhancedVolcano.

Carithers, Latarsha J., Kristin Ardlie, Mary Barcus, Philip A. Branton, Angela Britton, Stephen A. Buia, Carolyn C. Compton, et al. 2015. “A Novel Approach to High-Quality Postmortem Tissue Procurement: The GTEx Project.” Biopreservation and Biobanking 13 (5): 311–19. https://doi.org/10.1089/bio.2015.0032.

Carlson, Marc. 2019. Org.Hs.eg.db: Genome Wide Annotation for Human.

Huber, W., Carey, V. J., Gentleman, R., Anders, et al. 2015. “Orchestrating High-Throughput Genomic Analysis with Bioconductor.” Nature Methods 12 (2): 115–21. http://www.nature.com/nmeth/journal/v12/n2/full/nmeth.3252.html.

Kassambara, Alboukadel, and Fabian Mundt. 2020. Factoextra: Extract and Visualize the Results of Multivariate Data Analyses. https://CRAN.R-project.org/package=factoextra.

Love, Michael I., Wolfgang Huber, and Simon Anders. 2014. “Moderated Estimation of Fold Change and Dispersion for Rna-Seq Data with Deseq2.” Genome Biology 15 (12): 550. https://doi.org/10.1186/s13059-014-0550-8.

Pagès, Hervé, Marc Carlson, Seth Falcon, and Nianhua Li. 2019. AnnotationDbi: Manipulation of Sqlite-Based Annotations in Bioconductor.

R Core Team. 2019. R: A Language and Environment for Statistical Computing. Vienna, Austria: R Foundation for Statistical Computing. https://www.R-project.org/.

Ritchie, Matthew E, Belinda Phipson, Di Wu, Yifang Hu, Charity W Law, Wei Shi, and Gordon K Smyth. 2015. “limma Powers Differential Expression Analyses for RNA-Sequencing and Microarray Studies.” Nucleic Acids Research 43 (7): e47. https://doi.org/10.1093/nar/gkv007.

Robinson, M. D., D. J. McCarthy, and G. K. Smyth. 2009. “edgeR: A Bioconductor Package for Differential Expression Analysis of Digital Gene Expression Data.” Bioinformatics 26 (1): 139–40. https://doi.org/10.1093/bioinformatics/btp616.

RStudio Team. 2015. RStudio: Integrated Development Environment for R. Boston, MA: RStudio, Inc. http://www.rstudio.com/.

Wickham, Hadley. 2016. Ggplot2: Elegant Graphics for Data Analysis. Springer-Verlag New York. https://ggplot2.tidyverse.org.

Yu, Guangchuang. 2019. Enrichplot: Visualization of Functional Enrichment Result. https://github.com/GuangchuangYu/enrichplot.